Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_018397276.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_106.0, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 2845708
ACGTcount: A:0.30, C:0.14, G:0.14, T:0.30
Warning! 346660 characters in sequence are not A, C, G, or T
File 2 of 6
Found at i:567887 original size:171 final size:161
Alignment explanation
Indices: 567582--567898 Score: 341
Period size: 171 Copynumber: 1.9 Consensus size: 161
567572 TCGACTTTAC
* *
567582 TAAGGCTTTCAATGGCTTAAGTAACTATAAATGGACTTTTCTTACCCATGGATGGCTTTTGCTTC
1 TAAGGCTTTCAATGGCTTAAGGAACTATAAATGGACTTTTCTTACCAATGGATGGCTTTTGCTTC
* ** * * * *
567647 ATGTTTCCCAAGGCAGACATTCAGTTATAATTTATTTTAACCACAAATGTAAAAAGATTCAACTT
66 ACGTTTCCCAAGGCAGACATTCAAATATAATATATTTTAACAAAAAATATAAAAAGATTCAACTT
*
567712 AAAATCAATTATGAGACNNNNNNNNNNTTTAAAGTGAGTAA
131 AAAATCAATAATGAGAC----------TTTAAAGTGAGTAA
* *
567753 TAAGGCTTTCAATGGCTTGAGGGACTATAAATGGACTTTTCTTACCAATGCG-TGGCTTTTGCTT
1 TAAGGCTTTCAATGGCTTAAGGAACTATAAATGGACTTTTCTTACCAATG-GATGGCTTTTGCTT
* ** * * * *
567817 CACGTTTTCTGAGGTAGATATTCAAATATAATATATTTTAATAAAAAATATAAAATA-ATTCAAT
65 CACGTTTCCCAAGGCAGACATTCAAATATAATATATTTTAACAAAAAATATAAAA-AGATTCAAC
567881 TTAAAATCAATAATGAGA
129 TTAAAATCAATAATGAGA
567899 TTATAAANNN
Statistics
Matches: 125, Mismatches: 19, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
171 123 0.98
172 2 0.02
ACGTcount: A:0.35, C:0.13, G:0.15, T:0.34
Consensus pattern (161 bp):
TAAGGCTTTCAATGGCTTAAGGAACTATAAATGGACTTTTCTTACCAATGGATGGCTTTTGCTTC
ACGTTTCCCAAGGCAGACATTCAAATATAATATATTTTAACAAAAAATATAAAAAGATTCAACTT
AAAATCAATAATGAGACTTTAAAGTGAGTAA
Found at i:568375 original size:171 final size:172
Alignment explanation
Indices: 567957--572769 Score: 3745
Period size: 171 Copynumber: 28.3 Consensus size: 172
567947 ACTATAAATG
* * * * * *
567957 AAAAAATTTAACTTAAAATCAATCATGAGATTATAAAACAATTTAAAG-GAAGCAACAAGTCTTT
1 AAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCG-AGTAATAAGGCTTT
* * * * * * * **
568021 TGAAAGCTTGAATAACTATAAATAAATTTTTCTTACCAATGGAGGGCTTTTGCTTTA-TGTTTTT
65 TGAAGGCTTGAGTGACTATAAATGAACTTTTCTTACCAATGGATGGCTTTTGCTTCACTGTTTCC
* * * * * ** *
568085 TGAGGCAAACATTCAAATATAATCTGTTTTAACAAAAAAAAATC
130 TGAAGTAGACATTCAAATATAATCTATTTTAAC-CAAAAATGTA
* * * * *
568129 AAACAATTCAACTAAAAATCAATTATGAGATTATAAAACTATTTAAAGAGAGAAATAAGGCTTTT
1 AAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTT
* *
568194 -AATGGCTTGAGTGACTATAAATGAACTTTTCTTACCAATGGATGGCTTTCGCTTCACAG-TTCC
66 GAA-GGCTTGAGTGACTATAAATGAACTTTTCTTACCAATGGATGGCTTTTGCTTCACTGTTTCC
* * *
568257 TGAAGTAGACAATCAAATATAATTTATTTTAACGAAAAATGTA
130 TGAAGTAGACATTCAAATATAATCTATTTTAACCAAAAATGTA
* * ** * *
568300 AAAAAATTTAACTTAAATTCAATTATGAGATTATAAAATAATTTAAAGCGAGCAATAAGGCTTTC
1 AAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTT
* * * ** * *
568365 AAAAGCTTGAGTGATTATAAAT-AGACTTTTCTTGTCAATGGATGTCTTTTGCTTCAC-GTTT-T
66 GAAGGCTTGAGTGACTATAAATGA-ACTTTTCTTACCAATGGATGGCTTTTGCTTCACTGTTTCC
* * * ** * * *
568427 TCAAGGTAGATATTTAGTTATAATTTATTTTAA-TAAAAATATA
130 TGAA-GTAGACATTCAAATATAATCTATTTTAACCAAAAATGTA
* * *
568470 AAAACATTTAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCAAGTAATAAGGC-TTT
1 AAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTT
* * * *
568534 CAATGGCTTGAGTGA-TATAAAT-AGACTTTTCTTACCATTGGATGGTTTTTGCTTCAC-ATTTC
66 GAA-GGCTTGAGTGACTATAAATGA-ACTTTTCTTACCAATGGATGGCTTTTGCTTCACTGTTTC
* * * * **
568596 CTTAGGCAGACATTTAAATATAATCTATTTTAATGAAAAATGTA
129 CTGAAGTAGACATTCAAATATAATCTATTTTAACCAAAAATGTA
* * *
568640 AAAAAA-TCAACTTAGAATCAATAATGAGATCATAAAACCATTTAAAGCGAGTAATAAGGCTTTT
1 AAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTT
* ** * * * *
568704 GAAGGTTTGAGTGACTATAAATGAACTTTTCTTTTCAATGGATGACTTTAGGTTCA-GGTTTCCC
66 GAAGGCTTGAGTGACTATAAATGAACTTTTCTTACCAATGGATGGCTTTTGCTTCACTGTTT-CC
* ** * *
568768 ATG--GTAGACAATCAGTTATAATTTATTTTAACCACAAATGTA
130 -TGAAGTAGACATTCAAATATAATCTATTTTAACCAAAAATGTA
* * * *
568810 AAAAAATTTAACTTAAAATCAATTATGAGACTATAAAACTA-TTAAAACTGAGTAATAAGGCTTT
1 AAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGC-GAGTAATAAGGCTTT
* ** * * *
568874 TGAAGGCTTCAGTGACTATAAAT-ATACTTTTCTTGTCATTGGATGGGTTTTGCTTCAC-ATTTC
65 TGAAGGCTTGAGTGACTATAAATGA-ACTTTTCTTACCAATGGATGGCTTTTGCTTCACTGTTTC
* * * ** * *
568937 CTGAGGTAAACAGTCAAATATAATCTATTTTAATAAAAAATATG
129 CTGAAGTAGACATTCAAATATAATCTATTTTAACCAAAAATGTA
* * * * **
568981 CAAAGATTCAACTTAAAATCAATTATGAGATTATAAAATCATTTAAAGCTAGTAATAAGTTTTTT
1 AAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTT
* ** *
569046 G-AGAACTTGAGTGACTATAAAT-AGACTTTTCTTATTAATGGATGGCTTTTGCTCCAC-GTTT-
66 GAAG-GCTTGAGTGACTATAAATGA-ACTTTTCTTACCAATGGATGGCTTTTGCTTCACTGTTTC
* * * * *
569107 TTCG-AG--G-----CGAACAT--T-TAGTTTAACCAAAAATATAA
129 CT-GAAGTAGACATTCAAATATAATCTATTTTAACCAAAAATGT-A
* *
569142 AAAAAATTCAA-TTAAAAATCAATTATGAGACTATAAAACCATTTAAAGCGAGTAAATAAAGCTT
1 AAAAAATTCAACTT-AAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGT-AATAAGGCTT
* *** * * *
569206 TCGAAATATTGAGCGACTATAAATGAACTTTTCTTGCCAATGGATGGTTTTTGCTTCA-TGTTTC
64 TTGAAGGCTTGAGTGACTATAAATGAACTTTTCTTACCAATGGATGGCTTTTGCTTCACTGTTTC
* * * * *
569270 AT-AAGGTAGATATTCAAATATAATGTATTGTAA-CAAAGAATATA
129 CTGAA-GTAGACATTCAAATATAATCTATTTTAACCAAA-AATGTA
* * *
569314 AAAAAATTCAACTTAAAATGAATTATGAGATTTATAAAATCATTTAAAGCAAGTAATAAGGC-TT
1 AAAAAATTCAACTTAAAATCAATTATGAGA-TTATAAAACCATTTAAAGCGAGTAATAAGGCTTT
* ** * *
569378 TCAATGGCTTGAGTGACTATAAACAAACTTTTCTTACCATTGGGTGGCTTTTGCTTCA-TGTTTC
65 TGAA-GGCTTGAGTGACTATAAATGAACTTTTCTTACCAATGGATGGCTTTTGCTTCACTGTTTC
* * * * *
569442 CTTAGGCAGACATTCAAATATAACCTATTTTAACGAAAAATGTA
129 CTGAAGTAGACATTCAAATATAATCTATTTTAACCAAAAATGTA
* * * * * * *
569486 AAACAATTCAACTTAGAATCAATAATGGGATCATAAAATCATTTAAAGCGAGTAATAGGGCTTTT
1 AAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTT
* * *** * *
569551 GAAGGTTTGAGTGACTATAAATGGACTTTTCTTTTTAATGGATGGCTTTTTCTTCA-TGTGTCCC
66 GAAGGCTTGAGTGACTATAAATGAACTTTTCTTACCAATGGATGGCTTTTGCTTCACTGT-TTCC
* * ** * * *
569615 ATG--GCAGACAATCAGTTA-AATTTATTTTAACCACAAATGCA
130 -TGAAGTAGACATTCAAATATAATCTATTTTAACCAAAAATGTA
* * * * ** *
569656 AAAAAATTCAACTTAAAATTAATTATGAGACTAT-GAA-CATTAAAATAGAGTAATAAGGCTTTC
1 AAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTT
* * * * * *
569719 GAAGGCTTCAGTGATTATAAAT-ATACTTTTCTTATCATTGGATGGATTTTGCTTCA-TGTTTCT
66 GAAGGCTTGAGTGACTATAAATGA-ACTTTTCTTACCAATGGATGGCTTTTGCTTCACTGTTTCC
* * * ** *
569782 TG-AGATAAACAGTCAAATATAATCTGTTTTAATAAAAAATAT-
130 TGAAG-TAGACATTCAAATATAATCTATTTTAACCAAAAATGTA
* * ** **
569824 AAAAAATTTAACTTAAAATTAATTATGAGATTATAAAACCATTTAAAGTTAGTAATAAGTTTTTT
1 AAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTT
* * * ** * **
569889 G-AGAGCTTGAGTAACTATAAATGGACTTTTCTCATTAATGGATGGTTTTTGCTTCAC-GTTTTT
66 GAAG-GCTTGAGTGACTATAAATGAACTTTTCTTACCAATGGATGGCTTTTGCTTCACTGTTTCC
* * *
569952 TG-AG--G-----CAAACAT--TC-AGTTTAACCAAAAATATA
130 TGAAGTAGACATTCAAATATAATCTATTTTAACCAAAAATGTA
* * *
569984 AAAAAATTCAACTTGAAATCAATTATGAGACTATAAAACCATTTAAAGCGAGTAATAAGGCTTTC
1 AAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTT
* ** * *** * * *
570049 AAAATCTTAAACCACTATAAATTG-ACTTTTCTTGCTAATGGATGG-TTTTGGCATCAC-GTTTC
66 GAAGGCTTGAGTGACTATAAA-TGAACTTTTCTTACCAATGGATGGCTTTT-GCTTCACTGTTTC
* * * * *
570111 CT-AAGGCAGATATTCAAATATAATGTATTTTAA-TAAAGAATATA
129 CTGAA-GTAGACATTCAAATATAATCTATTTTAACCAAA-AATGTA
* ** *
570155 AAAAAA-TCAACTTAAAATCAATAATGAGATTATAAATTCATTTAAAGTGAGTAATAAGGCTTTT
1 AAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTT
* * * * * *
570219 GAAGGATTGAGTGACTATAAATGGACTTTCCTTGCCAATGGATGACTTTTGCTTGAC-GTTTTCC
66 GAAGGCTTGAGTGACTATAAATGAACTTTTCTTACCAATGGATGGCTTTTGCTTCACTG-TTTCC
* * *
570283 T--AGATAAACAGTCAAATATAATCTATTTTAACCATAAATGTA
130 TGAAG-TAGACATTCAAATATAATCTATTTTAACCAAAAATGTA
* * * * **
570325 GAAAAATTCAGCTTAAAATCAATTATGCA-ATTATAAAACTATTTAAAGCTAGTAATAAGTTTTT
1 AAAAAATTCAACTTAAAATCAATTATG-AGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTT
* * ** * *
570389 TGAGGGCTTGAGTGACTATAAATCAACTTTT-TTCATAAATGGATGGCTTTTGATTGA-TGTTTC
65 TGAAGGCTTGAGTGACTATAAATGAACTTTTCTT-ACCAATGGATGGCTTTTGCTTCACTGTTTC
* * * ** * * * *
570452 C-CAAGGCAGATATTCAGTTCTAATATATTTTAACTAAAAATATA
129 CTGAA-GTAGACATTCAAATATAATCTATTTTAACCAAAAATGTA
* * * * * * *
570496 AAGAAATTTAACTTAAAATCAATAATTAGATTATAAAACCATTTAAAGTGAGTAAAAAGGCTTTC
1 AAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTT
* * ***
570561 GAAAGCTTGAGTGACTATAAATGAACTTTGCTTACCAACATATGGCTTTTGCTTCA-TGTTTCC-
66 GAAGGCTTGAGTGACTATAAATGAACTTTTCTTACCAATGGATGGCTTTTGCTTCACTGTTTCCT
* * * * *
570624 CAAGGTAAATAGTCAAATATAATCTATTTTAACCATAAATGTA
131 GAA-GTAGACATTCAAATATAATCTATTTTAACCAAAAATGTA
* * * * **
570667 AAAAAATTCAACTTAAAATCAATGATGCGATTATAAAACCCTTTAAAGCTAGTAATAAGTTTTTT
1 AAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTT
* * * * *
570732 GAGGGCTTGAATGACTATAAATCG-A-TTTTTTTCACAAATGGATGGCTTTTACTTCACAT-TTT
66 GAAGGCTTGAGTGACTATAAAT-GAACTTTTCTT-ACCAATGGATGGCTTTTGCTTCAC-TGTTT
** * * *
570794 -CTGAGAG-AGACATTCAGTTATAATATATTTTAATCAAAAATATA
128 CCTGA-AGTAGACATTCAAATATAATCTATTTTAACCAAAAATGTA
* * * * * *
570838 AAAACAATTTAACTTAAAATCAATTATAAGACTATAAAACCATTTGAAGCGAGTTAGAAGGCTTT
1 AAAA-AATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTT
* * * * * * *
570903 TGAAGGCTTGAGCGACAAGAAAT-AGACTTTTCTTATCAATAGATGGCTTTTGCTTTA-TGTTTA
65 TGAAGGCTTGAGTGACTATAAATGA-ACTTTTCTTACCAATGGATGGCTTTTGCTTCACTGTTTC
* * * ** * *
570966 ATGAGGT-GAACATTTAGGTATAATATATTTTAATCAAAAATGTA
129 CTGAAGTAG-ACATTCAAATATAATCTATTTTAACCAAAAATGTA
* * * * **
571010 AAAAAGTTCAACTTGAAATAAATTATGAGATTATAAAACCATTTAAAGTGAGTAATAAAACTTTT
1 AAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTT
* * * * *
571075 GAAGGCTTGAGTGACTATAAATGGACTTTTCTTGCCAATGAATGGCTTTTGCTTTA-TGTTTTAC
66 GAAGGCTTGAGTGACTATAAATGAACTTTTCTTACCAATGGATGGCTTTTGCTTCACTG-TTTCC
* * * * *
571139 -G-AGACAAACAGTCAAATATAATCTATTTTAACCAAAATTATA
130 TGAAG-TAGACATTCAAATATAATCTATTTTAACCAAAAATGTA
* * * * * * **
571181 AAAAAAATCAGCTTAAAATCAATTATGCGATTAT-AAACGATTTAAAACTAGTAATAAGTTTTTT
1 AAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTT
* * *
571245 G-AGGTCTTAAGTGACTATAAATTAACTTTTTCTATA--AATGGATGGCTTTTGCTTTAC-GTTT
66 GAAGG-CTTGAGTGACTATAAATGAAC-TTTTCT-TACCAATGGATGGCTTTTGCTTCACTGTTT
* * * ** * *
571306 CCTTAGGTAGACTTTCAGTTATAATATATTTTAACAAAAAATGTA
128 CCTGAAGTAGACATTCAAATATAATCTATTTTAACCAAAAATGTA
* * * * *
571351 AAAAAGTTCAACTTAAAGTCAATAATAAGATTATAAAACCATTTAAAGCGGCTAATAAGGCTTTC
1 AAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGC-G--AGTAA-----T-
*
571416 GAAGGCTTTTGAAGGCTTGAGTGACTATAAAT-AGACTTTTTTTACCAATGGATGGCTTTTGCTT
57 -AAGGCTTTTGAAGGCTTGAGTGACTATAAATGA-ACTTTTCTTACCAATGGATGGCTTTTGCTT
* * * * * * * *
571480 GAC-GTTT-CTTAAGGTAAATAGTT-AAATACAATTTGTTTTAACCATAAATGTA
120 CACTGTTTCCTGAA-GTAGACA-TTCAAATATAATCTATTTTAACCAAAAATGTA
* * * * * ***
571532 GAAAAATTCTACTTAAAATCAATTATGTGGTTATAAAACCATTTAAAGCTAGTAATAACTTTTTT
1 AAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTT
* * * *
571597 GAGGGCTTGAGTGACTATAAATCG-ACTTTTCTCT-CAAATGAATGGCTTTTGCTTGAC-GTTTC
66 GAAGGCTTGAGTGACTATAAAT-GAACTTTTCT-TACCAATGGATGGCTTTTGCTTCACTGTTTC
* * * ** * * *
571659 CT-AAGGCAAACATTTAGTTATAATATATTTTAACCAAAATTATA
129 CTGAA-GTAGACATTCAAATATAATCTATTTTAACCAAAAATGTA
* * * * *
571703 AAGAAATTCAACTTAAAATCTATAATTAGA-T-TAAAATCATTTAAAGCGAGTAATAAGGCTTTC
1 AAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTT-
** * ** * *
571766 T-AAAACTTGAGTGACTATAAATGAACTTTTTTTGGCAATGGATGGCTTTTTCTTCA-TGGTT-C
65 TGAAGGCTTGAGTGACTATAAATGAACTTTTCTTACCAATGGATGGCTTTTGCTTCACTGTTTCC
* * * * * * *
571828 TCAAGGGAAACAATCAAATATAATCTGTTTTAACTAAAAATGTG
130 TGAA-GTAGACATTCAAATATAATCTATTTTAACCAAAAATGTA
* * *
571872 AAAGAATTCAACTTAAAATTC-GTAATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTT
1 AAAAAATTCAACTTAAAA-TCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTT
* * * * * * *
571936 CGAAGGCTTGAATGAATATAAAT-AGACTTTTCTTATCGATGGATGGCTTTTGCTTTA-TGTTTT
65 TGAAGGCTTGAGTGACTATAAATGA-ACTTTTCTTACCAATGGATGGCTTTTGCTTCACTGTTTC
* * * ** * * *
571999 CTGAGGCAGACATTTAGTTATAATTTATTTTAATCACAAATGTA
129 CTGAAGTAGACATTCAAATATAATCTATTTTAACCAAAAATGTA
* * * * *
572043 AAAAAATTCAACTTAAAATCAATTATGATACTATAAAACCATTCAAAGAGAGTAATAACGCTTTT
1 AAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTT
* * * * * * *
572108 -AATGTCTTGAGTGACTTTAAATGGACTTTTCTTGCCAATGGATGGCTTTCGCTTCA-TGTTGCT
66 GAA-GGCTTGAGTGACTATAAATGAACTTTTCTTACCAATGGATGGCTTTTGCTTCACTGTTTCC
* * ** * *
572171 TGAGGTAGACATTTACTTATAATATGTTTTAACCAAAAATGTA
130 TGAAGTAGACATTCAAATATAATCTATTTTAACCAAAAATGTA
* * * * *
572214 AAAAAATTCAACTTAAAATCAATTACGAGATTATAAAATCATTTAAAGCAAGTAATAAAGCTTTC
1 AAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTT
* * * * *
572279 GAAGGTTTGAGTGACTATAAATGGAA-TTTTTTTACAAATGGATGGCTTTTGCTTTA-TATTT-C
66 GAAGGCTTGAGTGACTATAAAT-GAACTTTTCTTACCAATGGATGGCTTTTGCTTCACTGTTTCC
* ** * *
572341 TGAGGCTA-ACATTCAGCTATAAT-AAGTTTTAACTAAAAATGTA
130 TGAAG-TAGACATTCAAATATAATCTA-TTTTAACCAAAAATGTA
* * ** * * *
572384 AAAATATTCAACTTAAAATCAATCACAAGATTATAAAACCATTTAAAGGGAGCAATAAGTCTTTT
1 AAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTT
* * * * * * *
572449 AAAGGCTTGAATGACTATAAATAAATTTTTCTTGCCAATGGAGGGCTTCTGCTTCAC-GTTT-CT
66 GAAGGCTTGAGTGACTATAAATGAACTTTTCTTACCAATGGATGGCTTTTGCTTCACTGTTTCCT
* * * ** * *
572512 CAACTTAGACATTAAAATATAATCCGTTTTACCCAAATATGTA
131 GAA-GTAGACATTCAAATATAATCTATTTTAACCAAAAATGTA
* * * **
572555 CAAAAAA-TCAACTTAAAATCAATAATGAAACTATAAAATTATTTAAAGCGAGTAATAAGGCTAT
1 -AAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCT-T
* * * *
572619 TT-AAGGTTTGAGTGACTATAAATGGACTTTTCTTACCAATAGATGACTTTTGCTTCAC-GTTTC
64 TTGAAGGCTTGAGTGACTATAAATGAACTTTTCTTACCAATGGATGGCTTTTGCTTCACTGTTTC
* * * * ** * ** *
572682 ATGAGGCAAACATTCAGTTATAATATA-TTTAATAAAAAATATA
129 CTGAAGTAGACATTCAAATATAATCTATTTTAACCAAAAATGTA
*
572725 AAAAAATTCAACTTAAAATCAATTATAAGATTAT-AAACCATTTAA
1 AAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAA
572770 CGAGAATAAT
Statistics
Matches: 3686, Mismatches: 789, Indels: 335
0.77 0.16 0.07
Matches are distributed among these distances:
159 17 0.00
160 117 0.03
161 50 0.01
162 62 0.02
163 10 0.00
165 1 0.00
166 2 0.00
167 3 0.00
168 121 0.03
169 301 0.08
170 746 0.20
171 1617 0.44
172 447 0.12
173 49 0.01
174 4 0.00
178 4 0.00
179 3 0.00
180 10 0.00
181 117 0.03
182 5 0.00
ACGTcount: A:0.39, C:0.12, G:0.14, T:0.35
Consensus pattern (172 bp):
AAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTT
GAAGGCTTGAGTGACTATAAATGAACTTTTCTTACCAATGGATGGCTTTTGCTTCACTGTTTCCT
GAAGTAGACATTCAAATATAATCTATTTTAACCAAAAATGTA
Found at i:570078 original size:160 final size:159
Alignment explanation
Indices: 569816--570217 Score: 383
Period size: 160 Copynumber: 2.5 Consensus size: 159
569806 TGTTTTAATA
* * * **
569816 AAAAATATAAAAAATTTAACTTAAAATTAATTATGAGATTATAAAACCATTTAAAGTTAGTAATA
1 AAAAATATAAAAAATTCAACTTAAAATCAATTATGAGACTATAAAACCATTTAAAGCGAGTAATA
** ** * * ** * * *
569881 AGTTTTTTGAGAGCTTGAGTAACTATAAATGGACTTTTCTCATTAATGGATGGTTTTTGCTTCAC
66 AGGCTTTCAAAAGCTTAAACAACTATAAATGGACTTTTCTCACTAATGGATGGTTTTGGCATCAC
569946 GTTTTTTGAGGCAAACATTCAGTTTAACC
131 GTTTTTTGAGGCAAACATTCAGTTTAACC
*
569975 AAAAATATAAAAAAATTCAACTTGAAATCAATTATGAGACTATAAAACCATTTAAAGCGAGTAAT
1 AAAAATAT-AAAAAATTCAACTTAAAATCAATTATGAGACTATAAAACCATTTAAAGCGAGTAAT
* * * **
570040 AAGGCTTTCAAAATCTTAAACCACTATAAATTGACTTTTCTTGCTAATGGATGGTTTTGGCATCA
65 AAGGCTTTCAAAAGCTTAAACAACTATAAATGGACTTTTCTCACTAATGGATGGTTTTGGCATCA
** * * *
570105 CGTTTCCTAAGGCAGATATTCAAATATAATGTATTTTAA-T
130 CGTTTTTTGAGGCA-A-A--C--AT-TCA-G---TTTAACC
* * * ** *
570145 AAAGAATATAAAAAAATCAACTTAAAATCAATAATGAGATTATAAATTCATTTAAAGTGAGTAAT
1 AAA-AATATAAAAAATTCAACTTAAAATCAATTATGAGACTATAAAACCATTTAAAGCGAGTAAT
570210 AAGGCTTT
65 AAGGCTTT
570218 TGAAGGATTG
Statistics
Matches: 196, Mismatches: 34, Indels: 15
0.80 0.14 0.06
Matches are distributed among these distances:
159 8 0.04
160 110 0.56
161 1 0.01
162 1 0.01
164 1 0.01
166 2 0.01
167 2 0.01
168 1 0.01
170 60 0.31
171 10 0.05
ACGTcount: A:0.42, C:0.11, G:0.13, T:0.35
Consensus pattern (159 bp):
AAAAATATAAAAAATTCAACTTAAAATCAATTATGAGACTATAAAACCATTTAAAGCGAGTAATA
AGGCTTTCAAAAGCTTAAACAACTATAAATGGACTTTTCTCACTAATGGATGGTTTTGGCATCAC
GTTTTTTGAGGCAAACATTCAGTTTAACC
Found at i:573260 original size:170 final size:170
Alignment explanation
Indices: 572795--576651 Score: 3059
Period size: 171 Copynumber: 22.6 Consensus size: 170
572785 TTTTGAAAGC
* * * * * *
572795 CAATGGATGGTTTTTGCATT-ATGTTTCCTGAGGGAGACATTCCA-ATATAATCTATTTTAATCA
1 CAATGGATGGCTTTTGC-TTCACGTTTCTTGAGGCAGACATT-CAGTTATAATTTATTTTAATCA
* * * ** *
572858 AAAAT-TCAAAAAAAATTCATCTCAAAATCAAAAATGAGATTATAAAACCTTTTAAAGCGAGTAA
64 AAAATGT--TAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAA
* * * *
572922 TAAGGCTATTC-AAGGCTTAAGTGACTATAAATAGACTATTCTTGA
127 TAA-GCT-TTCAAAGGCTTGAGTGACTATAAATGGACTTTTCTTGT
* * * * * * * * ****
572967 CAATAGATGGGTTTTACTTCACATTTCCT-AGGGCAAACATTTATTTATAATTTATTTT-AGNNN
1 CAATGGATGGCTTTTGCTTCACGTTTCTTGA-GGCAGACATTCAGTTATAATTTATTTTAATCAA
******* * *
573030 NNNNNNNAAAAAATTTCAACTTAAAATCAATTATGAGATTATAAAACTATTTAAAGCGAGCAATG
65 AAATGTTAAAAAA-TTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAAT-
*
573095 AAGCTTTCAAAGGCTTGAGGGACTATAAATGGACTTTTCTTGT
128 AAGCTTTCAAAGGCTTGAGTGACTATAAATGGACTTTTCTTGT
* * * *
573138 CAATGGATGGCTTTTGTTTCACGTTTCTTAAGGCAGACACTT-AGTTATAATTTATTTTAGTCAC
1 CAATGGATGGCTTTTGCTTCACGTTTCTTGAGGCAGACA-TTCAGTTATAATTTATTTTAATCAA
* * * *
573202 AAATGTTAAAAAA-GCAACTTAAAATCAATTATGAGATTGTAAAACTATTTAAAGCGAGCAATAA
65 AAATGTTAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAA
* * * *
573266 GGTTTTTGAAAGGCTTAAGTGACTATAAATGGACTTTTCTTGC
130 -G-CTTTCAAAGGCTTGAGTGACTATAAATGGACTTTTCTTGT
* * * * * * * * *
573309 CAATGGATGACTATTACTTCAAGTTTCTCGAGGTAGACATTCAGTTGTAATTTACTTTAATAAAA
1 CAATGGATGGCTTTTGCTTCACGTTTCTTGAGGCAGACATTCAGTTATAATTTATTTTAATCAAA
* * * *
573374 AAGGTAAAAAAAATTCAA-TAGAAAATCAATTATGAGATTATATAACCATTTAAAGTC-AGTAAT
66 AATGT-TAAAAAATTCAACT-TAAAATCAATTATGAGATTATAAAACCATTTAAAG-CGAGTAAT
* * * * *
573437 AAAGCTTTCAATGACTCGAGTAACTATAAATGGACTTCTT-TTGC
128 -AAGCTTTCAAAGGCTTGAGTGACTATAAATGGACTT-TTCTTGT
*** * * * * * ** *
573481 CAATGGATCATTTTTGTTTTACGTTTCCTAAGGCAGATATTCAAATATAATCTATTTTAA-CAAA
1 CAATGGATGGCTTTTGCTTCACGTTTCTTGAGGCAGACATTCAGTTATAATTTATTTTAATC-AA
** * * * * * * *
573545 AAAAATAAAAAAATTGAATTTAAAATCAATAATGAGATTATAAAACTATTTAAAGTGAATAATAA
65 AAATGTTAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAA
* * * *
573610 TG-TTATCGAAGACTTGAGTGACTGTAAATGGACTTTTCTTAT
130 -GCTT-TCAAAGGCTTGAGTGACTATAAATGGACTTTTCTTGT
* * ** * **
573652 CAATGGATGACTTTTGCTTCATGTTTCCCGAGGCAGACAATCAGTTATAATTTATTTTAAAGAAA
1 CAATGGATGGCTTTTGCTTCACGTTTCTTGAGGCAGACATTCAGTTATAATTTATTTTAATCAAA
*
573717 TATG-TAAAATAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAA
66 AATGTTAAAA-AATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAA
* * * * * *
573781 GGCTTTCGAAGGCTTAAGCGACTAGAAATGAAATTTTCTTGGT
130 -GCTTTCAAAGGCTTGAGTGACTATAAATGGACTTTTCTT-GT
** * * * * * *
573824 -AATGGATGGCTTTTGCTTCATTTTTCATAAGGCCA-ACATTTAGTTATAATATATTTCAATAAA
1 CAATGGATGGCTTTTGCTTCACGTTTCTTGAGG-CAGACATTCAGTTATAATTTATTTTAATCAA
* * * *
573887 AAAT-TTAAAAAGTTTCAACTTAAAATCAATTATGAGATTATAAAACTATTTAAAGTGATTAATA
65 AAATGTTAAAAA-ATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAAT-
** * * * * *
573951 AAG-TTATTGAAGGCATGAGAGACTATAAATAGACTTTCCTTAT
128 AAGCTT-TCAAAGGCTTGAGTGACTATAAATGGACTTTTCTTGT
* ** * * * * * *
573994 TAATGGATGAG-TTTTGCTTCATATTTCTCGAGGCAAAAATTCAGTTACAATTTATTTCAACCAA
1 CAATGGATG-GCTTTTGCTTCACGTTTCTTGAGGCAGACATTCAGTTATAATTTATTTTAATCAA
* * * * *
574058 AAATATAAAAAAATTTAACTTAAAATCAATTATGAGATTATAAAACAATTTAAAGTGAGTAATGA
65 AAATGTTAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAAT-A
* * * * *
574123 GGCTTTCAAAGGC-TGAGGGAATATAAATGGATTTTTTTTG-
129 AGCTTTCAAAGGCTTGAGTGACTATAAATGGACTTTTCTTGT
** * * * * *
574163 CTAATGGATGGCTTTTGCTTCACGTTTCTCAAGGTTA-AAATTCAATTATAATTTGTTTTTATCA
1 C-AATGGATGGCTTTTGCTTCACGTTTCTTGAGG-CAGACATTCAGTTATAATTTATTTTAATCA
* * * *
574227 AAAATGTAAAAAAATTCAACTTAAGATCAATTATGAGATTATAAAACCATTTAAAGCAACTAATA
64 AAAATGTTAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATA
* * *
574292 AGGCTTTCGAAGGCTCGAGTGACTATAAATGAACTTTTCTT-T
129 A-GCTTTCAAAGGCTTGAGTGACTATAAATGGACTTTTCTTGT
** * * ** *
574334 CCAACAGATGGTTTTTGCTTAACGTTTCTTGAGGCAGACATTCAAATATAATCTATTTTAAT-AA
1 -CAATGGATGGCTTTTGCTTCACGTTTCTTGAGGCAGACATTCAGTTATAATTTATTTTAATCAA
* * * *
574398 AAAT-ATAAAAAACTCAACTTAAAATCAATAATGAGATTATTAAACCATTTAAAGCGAGTAATAA
65 AAATGTTAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAA
* * *
574462 GACTTTCGAAGGCTTGAGTGAGTATAAATGGACTTTTCTTCT
130 G-CTTTCAAAGGCTTGAGTGACTATAAATGGACTTTTCTTGT
* ** * * * * *
574504 CAATGGATGGCTTTTGCCTCATATTTCCTAAGGGAGAAATTCAGTTATAATTCATTTTAA-CTAA
1 CAATGGATGGCTTTTGCTTCACGTTTCTTGAGGCAGACATTCAGTTATAATTTATTTTAATC-AA
* * * * *
574568 AAATATAAAAAAATTCAACTTAAAATAAATTATGAGATTATAAAACTATTTAAAGCTAGTAAT-A
65 AAATGTTAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAA
* * * *
574632 ------AATGGACATGAGTGATTATAAATGGACTTTTCTT-A
130 GCTTTCAAAGG-CTTGAGTGACTATAAATGGACTTTTCTTGT
* * * *
574667 CGAATGGATGAC-TTTGCTTCACGTTTCTTGAGGCAGATAATTC-GTTATAATATATTTTAAACA
1 C-AATGGATGGCTTTTGCTTCACGTTTCTTGAGGCAGA-CATTCAGTTATAATTTATTTTAATCA
* *
574730 AAAATGTTAAAATATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTGAAGCGAGTAATA
64 AAAATGTTAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATA
* * * * *
574795 TGGCTTGCAATA-GCTTGAGTGACTATACATGAACTTTTCTT-A
129 -AGCTTTCAA-AGGCTTGAGTGACTATAAATGGACTTTTCTTGT
* * ** * *
574837 CTAATGGATGGTTTTTGCTTCACGTTT-TCTGAGCCAGACATTCAAATATAATCTATTTTAACCA
1 C-AATGGATGGCTTTTGCTTCACGTTTCT-TGAGGCAGACATTCAGTTATAATTTATTTTAATCA
* * * *
574901 AAAAT-ATAAAAAACTTCAACTTAAAATCAATAATGAGATAATAAAACTATTTAAAGCGAGTAAT
64 AAAATGTTAAAAAA-TTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAAT
* ** * *
574965 AAGGCTTTTAAAGGCTTGAGCAACTAGAAACGGACTTTTCTTGT
128 AA-GCTTTCAAAGGCTTGAGTGACTATAAATGGACTTTTCTTGT
* * ** * * * *
575009 CAATAGATGACTTTTGCTTCACGTTTCACGAGG-TGAACATTTAGTTATAATATATTTTAATAAA
1 CAATGGATGGCTTTTGCTTCACGTTTCTTGAGGCAG-ACATTCAGTTATAATTTATTTTAATCAA
* * *
575073 AAAT-ATAAAAAAGTTTAACTTAAAATCAATTATGAGATTAT-AAACCATTTAAAGCAAGTAATA
65 AAATGTTAAAAAA-TTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATA
* * *
575136 AGGCTTTCGAAGTCTTGAGTAACTATAAATGGACTTTTCTTG-
129 A-GCTTTCAAAGGCTTGAGTGACTATAAATGGACTTTTCTTGT
** * ** * * * * * ** * *
575178 CTAATGGATACCTTTTACTTCATATTTCCTAAGGCAAACAGTAAAATATAATATGTTTTAA-CAA
1 C-AATGGATGGCTTTTGCTTCACGTTTCTTGAGGCAGACATTCAGTTATAATTTATTTTAATCAA
* * *
575242 AAATG-TAGAAAAATTCAACTTAAAATCAATTATGTGATTATAAAACCCTTTAAAGCTAGTAATA
65 AAATGTTA-AAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATA
* ** * * ***
575306 AGTTTTTTGAGGGCTTGAGTGACTATAAATAGACTTTT-TCAA
129 AG-CTTTCAAAGGCTTGAGTGACTATAAATGGACTTTTCTTGT
* * * ** * *
575348 CAAATGTATGGCTTCTACTTCACGTTTCCCGAGGCAGACATTCAGTTATAATATATTTTAAACAA
1 C-AATGGATGGCTTTTGCTTCACGTTTCTTGAGGCAGACATTCAGTTATAATTTATTTTAATCAA
* *
575413 AAATG-TAAAATAATTTATCTTAAAATCAA-TATGAGATTATAAAACCATTTAAAGCGAGTAATG
65 AAATGTTAAAA-AATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAAT-
* * * * * *
575476 AGGCTTTCAAAGGTTTGAGTAACTATAAACGGACTTCTCTTAT
128 AAGCTTTCAAAGGCTTGAGTGACTATAAATGGACTTTTCTTGT
** ** * * * ** * *
575519 CAATGGATAACTTTTGCTTCACGTTTCTCAAGGCACATAGTCAAATATAATATGTTTTAA-CTAA
1 CAATGGATGGCTTTTGCTTCACGTTTCTTGAGGCAGACATTCAGTTATAATTTATTTTAATC-AA
* * * * *
575583 AAATATAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAATCTATTTAAAGCCAGTAATAA
65 AAATGTTAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAA
* ** * * * * **
575648 GTTTTTTGAGGGCATAAGTAACTATAAATTTACTTTT-TCTG-
130 G-CTTTCAAAGGCTTGAGTGACTATAAATGGACTTTTCT-TGT
* * * * *
575689 CAAATGGATGGCTTTTGCTTCACACTTTC-TGAAGTATACATTCAGTTATAATATATTTTAA-CA
1 C-AATGGATGGCTTTTGCTTCAC-GTTTCTTGAGGCAGACATTCAGTTATAATTTATTTTAATCA
* *
575752 AAAAGTGTAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAACGAGTAAT
64 AAAA-TGTTAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAAT
* * * *
575817 AAGGCTTTCAATGGCTTGAGTAACCATAAATGGATTTTTCTT-T
128 AA-GCTTTCAAAGGCTTGAGTGACTATAAATGGACTTTTCTTGT
* * * * * * * * ** * *
575860 CTAATTGATAGTTTTTGCTTTACGTTTCCTAAGGCTGACATTAAAATATAATCTATTTTAATAAA
1 C-AATGGATGGCTTTTGCTTCACGTTTCTTGAGGCAGACATTCAGTTATAATTTATTTTAAT-CA
* * * * * * *
575925 AAAATATTAAAAAATTTAATTTAAAATCAATAATGATATTATAAAACCATTTAAAGTGACTAATA
64 AAAATGTTAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATA
* ** * * * *
575990 A-CATTATCGAAGATTTGAGTGACTGTAAATAGACTTTTTTTTTAT
129 AGC-TT-TCAAAGGCTTGAGTGACTATAAATGGAC--TTTTCTTGT
* * * *
576035 CAATGGATGGCTTTTGCTTCACATTTCCTGAGGCAGACAATCAGTTATAATTTATTTTAAACAAA
1 CAATGGATGGCTTTTGCTTCACGTTTCTTGAGGCAGACATTCAGTTATAATTTATTTTAATCAAA
* * * * *
576100 AATGTAAAAAAATTTAACTTAAAATCAATTATGAGACTATAAAACTATTTAAAACGAGTAATAAG
66 AATGTTAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAA-
* * * * * **
576165 GCTTTCGAAGGCTTGAGCGACTAGAAATGAAATTTTCTTAC
130 GCTTTCAAAGGCTTGAGTGACTATAAATGGACTTTTCTTGT
** * * * * * * * *
576206 CAATAAATGGCTTTTACTTCACATTTCATGAGGCCA-ATATTTAGTTATAATATATTTCAATAAA
1 CAATGGATGGCTTTTGCTTCACGTTTCTTGAGG-CAGACATTCAGTTATAATTTATTTTAATCAA
* *
576270 AAATG-TAAAAAAGTTCAACTTAAAATCAATTATGAGATTATAAAATCATTTAAAGTGAGTAATA
65 AAATGTTAAAAAA-TTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATA
* *
576334 AGGTTAT-AGAAGGCTTGAGGGACTATAAATGGACTTTTCTTGT
129 AGCTT-TCA-AAGGCTTGAGTGACTATAAATGGACTTTTCTTGT
* * ** * * * * * * * *
576377 CAGTCGATGAG-TTTTGCCACACATTTCTCGAGGTAAAAATTAAGTTACAATTTATTTTAACCAA
1 CAATGGATG-GCTTTTGCTTCACGTTTCTTGAGGCAGACATTCAGTTATAATTTATTTTAATCAA
* * * * ** *
576441 AAATATAAAAAAATTTAACTTAAAATCAATTTTGAGATTATAAAATAATTTAAAGCGAGCAATGA
65 AAATGTTAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAAT-A
* * **
576506 GGATTTCAAAGGCTTGAG-GAAAAATAAATGGACTTTTCTTG-
129 AGCTTTCAAAGGCTTGAGTG-ACTATAAATGGACTTTTCTTGT
* ** * * * * *
576547 CTAATGGATGGCTTTTACTTCACGTTTCTCAAGGTAAACGTTCAGTTATAATTTTTTTTAATAAA
1 C-AATGGATGGCTTTTGCTTCACGTTTCTTGAGGCAGACATTCAGTTATAATTTATTTTAATCAA
* *
576612 AAATATAAAAAAATTCAACTTAAAATCAATTATGAGATTA
65 AAATGTTAAAAAATTCAACTTAAAATCAATTATGAGATTA
576652 NNNNNNNNNN
Statistics
Matches: 2953, Mismatches: 614, Indels: 237
0.78 0.16 0.06
Matches are distributed among these distances:
163 96 0.03
164 41 0.01
168 1 0.00
169 174 0.06
170 626 0.21
171 1581 0.54
172 249 0.08
173 124 0.04
174 58 0.02
175 3 0.00
ACGTcount: A:0.39, C:0.12, G:0.14, T:0.35
Consensus pattern (170 bp):
CAATGGATGGCTTTTGCTTCACGTTTCTTGAGGCAGACATTCAGTTATAATTTATTTTAATCAAA
AATGTTAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAG
CTTTCAAAGGCTTGAGTGACTATAAATGGACTTTTCTTGT
Found at i:573912 original size:342 final size:341
Alignment explanation
Indices: 572831--576651 Score: 3456
Period size: 342 Copynumber: 11.2 Consensus size: 341
572821 CCTGAGGGAG
* * * * **
572831 ACATTCCAA-TATAATCTATTTTAATCAAAAAT-TCAAAAAAAATTCATCTCAAAATCAAAAATG
1 ACATT-CAATTATAATATATTTTAATAAAAAATAT--AAAAAAATTCAACTTAAAATCAATTATG
* * * * *
572894 AGATTATAAAACCT-TTTAAAGCGAGTAATAAGGCTATTCAAGGCTTAAGTGACTATAAATAGAC
63 AGATTATAAAA-CTATTTAAAGTGAGTAATAAGGTTATTGAAGGCTTGAGTGACTATAAATGGAC
* * ** * * * * * * *
572958 TATTCTTGA-CAATAGATGGGTTTTACTTCACATTTC-CTAGGGCAAACATTTATTTATAATTTA
127 TTTTCTT-ATCAATGGATGACTTTTGCTTCACGTTTCTCGA-GGCAGACAATCAGTTATAATTTA
*********** * *
573021 TTTTAGNNNNNNNNNNAAAAAATTTCAACTTAAAATCAATTATGAGATTATAAAACTATTTAAAG
190 TTTTAAACAAAAATGTAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAG
* *
573086 CGAGCAATGAA-GCTTTCAAAGGCTTGAGGGACTATAAATGGACTTTTCTTG-TCAATGGATGGC
255 CGAGTAAT-AAGGCTTTCAAAGGCTTGAGTGACTATAAATGGACTTTTCTTGCT-AATGGATGGC
*
573149 TTTTGTTTCACGTTTCTTAAGG-CA
318 TTTTGCTTCACGTTTC-TAAGGCCA
* * * * * * * *
573173 GACACTT-AGTTATAATTTATTTTAGTCACAAATGTTAAAAAA-GCAACTTAAAATCAATTATGA
1 -ACA-TTCAATTATAATATATTTTAATAAAAAATATAAAAAAATTCAACTTAAAATCAATTATGA
* * * * *
573236 GATTGTAAAACTATTTAAAGCGAGCAATAAGGTTTTTGAAAGGCTTAAGTGACTATAAATGGACT
64 GATTATAAAACTATTTAAAGTGAGTAATAAGGTTATTG-AAGGCTTGAGTGACTATAAATGGACT
** * * * * * * *
573301 TTTCTTGCCAATGGATGACTATTACTTCAAGTTTCTCGAGGTAGACATTCAGTTGTAATTTACTT
128 TTTCTTATCAATGGATGACTTTTGCTTCACGTTTCTCGAGGCAGACAATCAGTTATAATTTATTT
* * *
573366 TAATA-AAAAAGGTAAAAAAAATTCAA-TAGAAAATCAATTATGAGATTATATAACCATTTAAAG
193 TAA-ACAAAAATGT-AAAAAAATTCAACT-TAAAATCAATTATGAGATTATAAAACCATTTAAAG
* * * * * * ***
573429 TC-AGTAATAAAGCTTTCAATGACTCGAGTAACTATAAATGGACTTCTT-TTGCCAATGGATCAT
255 -CGAGTAATAAGGCTTTCAAAGGCTTGAGTGACTATAAATGGACTT-TTCTTGCTAATGGATGGC
* *
573492 TTTTGTTTTACGTTTCCTAAGG-CA
318 TTTTGCTTCACGTTT-CTAAGGCCA
* * * * * * * *
573516 GATATTCAAATATAATCTATTTTAACAAAAAAAATAAAAAAATTGAATTTAAAATCAATAATGAG
1 -ACATTCAATTATAATATATTTTAATAAAAAATATAAAAAAATTCAACTTAAAATCAATTATGAG
* * * * *
573581 ATTATAAAACTATTTAAAGTGAATAATAATGTTATCGAAGACTTGAGTGACTGTAAATGGACTTT
65 ATTATAAAACTATTTAAAGTGAGTAATAAGGTTATTGAAGGCTTGAGTGACTATAAATGGACTTT
* *
573646 TCTTATCAATGGATGACTTTTGCTTCATGTTTCCCGAGGCAGACAATCAGTTATAATTTATTTTA
130 TCTTATCAATGGATGACTTTTGCTTCACGTTTCTCGAGGCAGACAATCAGTTATAATTTATTTTA
* * *
573711 AAGAAATATGTAAAATAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGT
195 AACAAAAATGTAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGT
* * * * * * *
573776 AATAAGGCTTTCGAAGGCTTAAGCGACTAGAAATGAAATTTTCTTGGTAATGGATGGCTTTTGCT
260 AATAAGGCTTTCAAAGGCTTGAGTGACTATAAATGGACTTTTCTTGCTAATGGATGGCTTTTGCT
**
573841 TCATTTTTCATAAGGCCA
325 TCACGTTTC-TAAGGCCA
* * * * **
573859 ACATTTAGTTATAATATATTTCAATAAAAAATTTAAAAAGTTTCAACTTAAAATCAATTATGAGA
1 ACATTCAATTATAATATATTTTAATAAAAAATATAAAAAAATTCAACTTAAAATCAATTATGAGA
* * * * * *
573924 TTATAAAACTATTTAAAGTGATTAATAAAGTTATTGAAGGCATGAGAGACTATAAATAGACTTTC
66 TTATAAAACTATTTAAAGTGAGTAATAAGGTTATTGAAGGCTTGAGTGACTATAAATGGACTTTT
* * ** * * *
573989 CTTATTAATGGATGAGTTTTGCTTCATATTTCTCGAGGCA-AAAATTCAGTTACAATTTATTTCA
131 CTTATCAATGGATGACTTTTGCTTCACGTTTCTCGAGGCAGACAA-TCAGTTATAATTTATTTTA
* * * * *
574053 ACCAAAAATATAAAAAAATTTAACTTAAAATCAATTATGAGATTATAAAACAATTTAAAGTGAGT
195 AACAAAAATGTAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGT
* * * * *
574118 AATGAGGCTTTCAAAGGC-TGAGGGAATATAAATGGATTTTTTTTGCTAATGGATGGCTTTTGCT
260 AATAAGGCTTTCAAAGGCTTGAGTGACTATAAATGGACTTTTCTTGCTAATGGATGGCTTTTGCT
**
574182 TCACGTTTCTCAAGGTTA
325 TCACGTTTCT-AAGGCCA
* * * * * * *
574200 AAATTCAATTATAATTTGTTTTTATCAAAAATGTAAAAAAATTCAACTTAAGATCAATTATGAGA
1 ACATTCAATTATAATATATTTTAATAAAAAATATAAAAAAATTCAACTTAAAATCAATTATGAGA
* ** * * * *
574265 TTATAAAACCATTTAAAGCAACTAATAAGGCTT-TCGAAGGCTCGAGTGACTATAAATGAACTTT
66 TTATAAAACTATTTAAAGTGAGTAATAAGG-TTATTGAAGGCTTGAGTGACTATAAATGGACTTT
** ** * * * ** *
574329 TCTT-TCCAACAGATGGTTTTTGCTTAACGTTTCTTGAGGCAGACATTCAAATATAATCTATTTT
130 TCTTAT-CAATGGATGACTTTTGCTTCACGTTTCTCGAGGCAGACAATCAGTTATAATTTATTTT
* * * * *
574393 -AATAAAAATAT-AAAAAACTCAACTTAAAATCAATAATGAGATTATTAAACCATTTAAAGCGAG
194 AAACAAAAATGTAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAG
* * *
574456 TAATAAGACTTTCGAAGGCTTGAGTGAGTATAAATGGACTTTTCTT-CTCAATGGATGGCTTTTG
259 TAATAAGGCTTTCAAAGGCTTGAGTGACTATAAATGGACTTTTCTTGCT-AATGGATGGCTTTTG
* ** *
574520 CCTCATATTTCCTAAGG-GA
323 CTTCACGTTT-CTAAGGCCA
* * *
574539 GAAATTCAGTTATAAT-TCATTTTAACT-AAAAATATAAAAAAATTCAACTTAAAATAAATTATG
1 -ACATTCAATTATAATAT-ATTTTAA-TAAAAAATATAAAAAAATTCAACTTAAAATCAATTATG
* * *
574602 AGATTATAAAACTATTTAAAGCT-AGTAATAA----A-TG--GACATGAGTGATTATAAATGGAC
63 AGATTATAAAACTATTTAAAG-TGAGTAATAAGGTTATTGAAGGCTTGAGTGACTATAAATGGAC
* * *
574659 TTTTCTTA-CGAATGGATGAC-TTTGCTTCACGTTTCTTGAGGCAGATAATTC-GTTATAATATA
127 TTTTCTTATC-AATGGATGACTTTTGCTTCACGTTTCTCGAGGCAGACAA-TCAGTTATAATTTA
* * *
574721 TTTTAAACAAAAATGTTAAAATATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTGAAG
190 TTTTAAACAAAAATGTAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAG
* * * * * *
574786 CGAGTAATATGGCTTGCAATA-GCTTGAGTGACTATACATGAACTTTTCTTACTAATGGATGGTT
255 CGAGTAATAAGGCTTTCAA-AGGCTTGAGTGACTATAAATGGACTTTTCTTGCTAATGGATGGCT
*
574850 TTTGCTTCACGTTTTCTGA-GCCA
319 TTTGCTTCACG-TTTCTAAGGCCA
* * ** * *
574873 GACATTCAAATATAATCTATTTTAACCAAAAATATAAAAAACTTCAACTTAAAATCAATAATGAG
1 -ACATTCAATTATAATATATTTTAATAAAAAATATAAAAAAATTCAACTTAAAATCAATTATGAG
* * * ** * *
574938 ATAATAAAACTATTTAAAGCGAGTAATAAGGCTT-TTAAAGGCTTGAGCAACTAGAAACGGACTT
65 ATTATAAAACTATTTAAAGTGAGTAATAAGG-TTATTGAAGGCTTGAGTGACTATAAATGGACTT
* * * * * * *
575002 TTCTTGTCAATAGATGACTTTTGCTTCACGTTTCACGAGG-TGAACATTTAGTTATAATATATTT
129 TTCTTATCAATGGATGACTTTTGCTTCACGTTTCTCGAGGCAG-ACAATCAGTTATAATTTATTT
* * * *
575066 TAATA-AAAAATATAAAAAAGTTTAACTTAAAATCAATTATGAGATTAT-AAACCATTTAAAGCA
193 TAA-ACAAAAATGTAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCG
* * * **
575129 AGTAATAAGGCTTTCGAAGTCTTGAGTAACTATAAATGGACTTTTCTTGCTAATGGATACCTTTT
257 AGTAATAAGGCTTTCAAAGGCTTGAGTGACTATAAATGGACTTTTCTTGCTAATGGATGGCTTTT
* ** *
575194 ACTTCATATTTCCTAAGGCAA
322 GCTTCACGTTT-CTAAGGCCA
* * * * * * * *
575215 ACAGTAAAATATAATATGTTTTAA-CAAAAATGTAGAAAAATTCAACTTAAAATCAATTATGTGA
1 ACATTCAATTATAATATATTTTAATAAAAAATATAAAAAAATTCAACTTAAAATCAATTATGAGA
** * * * *
575279 TTATAAAACCCTTTAAAGCT-AGTAATAAGTTTTTTGAGGGCTTGAGTGACTATAAATAGACTTT
66 TTATAAAACTATTTAAAG-TGAGTAATAAGGTTATTGAAGGCTTGAGTGACTATAAATGGACTTT
* * * * * * * * *
575343 T-TCAACAAATGTATGGCTTCTACTTCACGTTTCCCGAGGCAGACATTCAGTTATAATATATTTT
130 TCTTATC-AATGGATGACTTTTGCTTCACGTTTCTCGAGGCAGACAATCAGTTATAATTTATTTT
* * *
575407 AAACAAAAATGTAAAATAATTTATCTTAAAATCAA-TATGAGATTATAAAACCATTTAAAGCGAG
194 AAACAAAAATGTAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAG
* * * * * * **
575471 TAATGAGGCTTTCAAAGGTTTGAGTAACTATAAACGGACTTCTCTT-ATCAATGGATAACTTTTG
259 TAATAAGGCTTTCAAAGGCTTGAGTGACTATAAATGGACTTTTCTTGCT-AATGGATGGCTTTTG
575535 CTTCACGTTTCTCAAGG-C-
323 CTTCACGTTTCT-AAGGCCA
* *
575553 ACATAGTCAAATATAATATGTTTTAACT-AAAAATATAAAAAAATTCAACTTAAAATCAATTATG
1 ACAT--TCAATTATAATATATTTTAA-TAAAAAATATAAAAAAATTCAACTTAAAATCAATTATG
* ** * * * * * * **
575617 AGATTATAAATCTATTTAAAGCCAGTAATAAGTTTTTTGAGGGCATAAGTAACTATAAATTTACT
63 AGATTATAAAACTATTTAAAGTGAGTAATAAGGTTATTGAAGGCTTGAGTGACTATAAATGGACT
* * * * * * * *
575682 TTT-TCT-GCAAATGGATGGCTTTTGCTTCACACTTTCT-GAAGTATACATTCAGTTATAATATA
128 TTTCT-TATC-AATGGATGACTTTTGCTTCAC-GTTTCTCGAGGCAGACAATCAGTTATAATTTA
575744 TTTT-AACAAAAAGTGTAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAA
190 TTTTAAACAAAAA-TGTAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAA
* * * * * * * * *
575808 ACGAGTAATAAGGCTTTCAATGGCTTGAGTAACCATAAATGGATTTTTCTTTCTAATTGATAGTT
254 GCGAGTAATAAGGCTTTCAAAGGCTTGAGTGACTATAAATGGACTTTTCTTGCTAATGGATGGCT
* **
575873 TTTGCTTTACGTTTCCTAAGGCTG
319 TTTGCTTCACGTTT-CTAAGGCCA
* * * * * * * *
575897 ACATTAAAATATAATCTATTTTAATAAAAAAATATTAAAAAATTTAATTTAAAATCAATAATGAT
1 ACATTCAATTATAATATATTTTAAT-AAAAAATATAAAAAAATTCAACTTAAAATCAATTATGAG
* * ** * ** * *
575962 ATTATAAAACCATTTAAAGTGACTAATAACATTATCGAAGATTTGAGTGACTGTAAATAGACTTT
65 ATTATAAAACTATTTAAAGTGAGTAATAAGGTTATTGAAGGCTTGAGTGACTATAAATGGAC--T
* * *
576027 TTTTTTATCAATGGATGGCTTTTGCTTCACATTTC-CTGAGGCAGACAATCAGTTATAATTTATT
128 TTTCTTATCAATGGATGACTTTTGCTTCACGTTTCTC-GAGGCAGACAATCAGTTATAATTTATT
* * * *
576091 TTAAACAAAAATGTAAAAAAATTTAACTTAAAATCAATTATGAGACTATAAAACTATTTAAAACG
192 TTAAACAAAAATGTAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCG
* * * * * * * **
576156 AGTAATAAGGCTTTCGAAGGCTTGAGCGACTAGAAATGAAATTTTCTTACCAATAAATGGCTTTT
257 AGTAATAAGGCTTTCAAAGGCTTGAGTGACTATAAATGGACTTTTCTTGCTAATGGATGGCTTTT
* * *
576221 ACTTCACATTTCATGAGGCCA
322 GCTTCACGTTTC-TAAGGCCA
* * * * * *
576242 ATATTTAGTTATAATATATTTCAATAAAAAATGTAAAAAAGTTCAACTTAAAATCAATTATGAGA
1 ACATTCAATTATAATATATTTTAATAAAAAATATAAAAAAATTCAACTTAAAATCAATTATGAGA
* *
576307 TTATAAAA-TCATTTAAAGTGAGTAATAAGGTTATAGAAGGCTTGAGGGACTATAAATGGACTTT
66 TTATAAAACT-ATTTAAAGTGAGTAATAAGGTTATTGAAGGCTTGAGTGACTATAAATGGACTTT
* * * * ** * * * * *
576371 TCTTGTCAGTCGATGAGTTTTGCCACACATTTCTCGAGGTA-AAAATTAAGTTACAATTTATTTT
130 TCTTATCAATGGATGACTTTTGCTTCACGTTTCTCGAGGCAGACAA-TCAGTTATAATTTATTTT
* * * * **
576435 AACCAAAAATATAAAAAAATTTAACTTAAAATCAATTTTGAGATTATAAAATAATTTAAAGCGAG
194 AAACAAAAATGTAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAG
* * * ** *
576500 CAATGAGGATTTCAAAGGCTTGAG-GAAAAATAAATGGACTTTTCTTGCTAATGGATGGCTTTTA
259 TAATAAGGCTTTCAAAGGCTTGAGTG-ACTATAAATGGACTTTTCTTGCTAATGGATGGCTTTTG
**
576564 CTTCACGTTTCTCAAGGTAA
323 CTTCACGTTTCT-AAGGCCA
* * * *
576584 ACGTTCAGTTATAATTTTTTTTAATAAAAAATATAAAAAAATTCAACTTAAAATCAATTATGAGA
1 ACATTCAATTATAATATATTTTAATAAAAAATATAAAAAAATTCAACTTAAAATCAATTATGAGA
576649 TTA
66 TTA
576652 NNNNNNNNNN
Statistics
Matches: 2845, Mismatches: 533, Indels: 201
0.79 0.15 0.06
Matches are distributed among these distances:
332 38 0.01
333 43 0.02
334 187 0.07
335 8 0.00
338 3 0.00
339 86 0.03
340 412 0.14
341 546 0.19
342 848 0.30
343 333 0.12
344 147 0.05
345 184 0.06
346 10 0.00
ACGTcount: A:0.39, C:0.12, G:0.14, T:0.35
Consensus pattern (341 bp):
ACATTCAATTATAATATATTTTAATAAAAAATATAAAAAAATTCAACTTAAAATCAATTATGAGA
TTATAAAACTATTTAAAGTGAGTAATAAGGTTATTGAAGGCTTGAGTGACTATAAATGGACTTTT
CTTATCAATGGATGACTTTTGCTTCACGTTTCTCGAGGCAGACAATCAGTTATAATTTATTTTAA
ACAAAAATGTAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTA
ATAAGGCTTTCAAAGGCTTGAGTGACTATAAATGGACTTTTCTTGCTAATGGATGGCTTTTGCTT
CACGTTTCTAAGGCCA
Found at i:577348 original size:171 final size:170
Alignment explanation
Indices: 576882--579493 Score: 2126
Period size: 171 Copynumber: 15.3 Consensus size: 170
576872 NNNNNNNNNN
* ** * * *
576882 TTATAATTTATTTTAA-CAAAAAAATAAAATAATTCAAATTAAAATCAATTATGAGACTATAAAA
1 TTATAATATATTTTAACCAAAAATGTAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAA
** ** * *
576946 TTATTTAAATTGAGTAATAAGGCTTTCAAAGGCTTGAGTGACTATAAATGGAGTTTTCTT-GTCA
66 CCATTTAAAGCGAGTAATAAGGCTTTC-AAGGCTTGAGTGACTATAAATGGACTTTTCTTACT-A
* ** * * *
577010 ATGGACGGCTTTTGCTTCATGTTTCTCAAGCCAAACAGTCAA
129 ATGGATGGCTTTTGCTTCATGTTTCTTGAGGCAAACATTCAG
* * *
577052 ATATAATATGTTTTAACCAAAAATGTAAAAAAAAAAATTCAACCTAAAATCAATTATGAGATTAT
1 TTATAATATATTTTAACCAAAAATGT----AAAAAAATTCAACTTAAAATCAATTATGAGATTAT
* * ** *
577117 AAAACCATTTAAAGCTAGTAATAAGGTTTTTGAGGTCTTGAGTGACTATAAATAGACTTTTCTTA
62 AAAACCATTTAAAGCGAGTAATAAGGCTTTCAAGG-CTTGAGTGACTATAAATGGACTTTTCTTA
* * *
577182 CTAATGGATGGCTTTTGCTTCACGTTTCTTGAGCCAAATATTTC-G
126 CTAATGGATGGCTTTTGCTTCATGTTTCTTGAGGCAAACA-TTCAG
** *
577227 TTATAATATATTTTAACCAAAAATGTAAAAACGTTCAACTTAAAATCTATTATGAGATTATAAAA
1 TTATAATATATTTTAACCAAAAATGTAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAA
* * * * *
577292 CTATTTGAAGAGAGTAATAAGGCTTTCAATGGCTTGAGTGACTATAGATGGACTTTTCTTACCAA
66 CCATTTAAAGCGAGTAATAAGGCTTTCAA-GGCTTGAGTGACTATAAATGGACTTTTCTTACTAA
* * * *
577357 TGGATGGTTTTTGCTTCACAT-TTTC-TGAGCCAGACATTCAA
130 TGGATGGCTTTTGCTT--CATGTTTCTTGAGGCAAACATTCAG
* * * * * * * *
577398 ATATAATCTATTTTAACCAAAAATATAAAAACATTTACCTTAAAATTAATAATGAGATTATAAAA
1 TTATAATATATTTTAACCAAAAATGTAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAA
* * *
577463 CCATTTAAAGCGAGTAATAAGGCTATCGAAGGCTTGAGTGACTATAAATGGACATTTCTT-GTCA
66 CCATTTAAAGCGAGTAATAAGGCTTTC-AAGGCTTGAGTGACTATAAATGGACTTTTCTTACT-A
* * * * *
577527 ATAGATGACTTTTGCTTCGTGTTTCTTGAGGTAGACATTCAG
129 ATGGATGGCTTTTGCTTCATGTTTCTTGAGGCAAACATTCAG
* * * * * * * * * *
577569 TTTTAATTTATTTTAAACAAAAATATAAAAACATTTAACTCAAAATTAATTATGGGACTATAAAA
1 TTATAATATATTTTAACCAAAAATGTAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAA
* * * ***
577634 CCATTTAAAGCGAGTAATAAGGCTTTCGAAGGCTTGAATAACTAGAAGCAGACTTTTCTTA-TCA
66 CCATTTAAAGCGAGTAATAAGGCTTTC-AAGGCTTGAGTGACTATAAATGGACTTTTCTTACT-A
* * * ** ** ** *
577698 ATAGATGACTTTTCCTTCACATTTCACGAGGTGAACATTTAG
129 ATGGATGGCTTTTGCTTCATGTTTCTTGAGGCAAACATTCAG
* *
577740 TTATAATATATTTTAATCAAAAATGTAAAAAAATTCAACTTAAAATCAATTATGAGATTATATAA
1 TTATAATATATTTTAACCAAAAATGTAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAA
* * * *
577805 CCATTTAAAGCAAGTAATAAGGCTTTCGAAGACTTGAGTGACTATAGATGGACTTTTCTTGCTAA
66 CCATTTAAAGCGAGTAATAAGGCTTTC-AAGGCTTGAGTGACTATAAATGGACTTTTCTTACTAA
* * *** * *
577870 TGAATGCCTTTTGCTTCATGTTTCCAAAGGCAAACAGTCAA
130 TGGATGGCTTTTGCTTCATGTTTCTTGAGGCAAACATTCAG
* * * ** * *
577911 ATATAATCTGTTTTAA-CAAAAAAATAAAAAAATTCAACTTAAAATCAATTATGTGCTTATAAAA
1 TTATAATATATTTTAACCAAAAATGTAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAA
* ** * * * * * *
577975 CCATTTAAAGCTAGTAATAAGTTTTTTGAGGGTTTGAGTGACTACAAATCGACTTTT-TTCACAA
66 CCATTTAAAGCGAGTAATAAG-GCTTTCAAGGCTTGAGTGACTATAAATGGACTTTTCTT-ACTA
* * * * * *
578039 ATGGATGACTTTTACTACACGTTT-TTCAAGGCAGACATTCAG
129 ATGGATGGCTTTTGCTTCATGTTTCTT-GAGGCAAACATTCAG
* * * *
578081 TTATAATATATTTTAAACAAAAATGT-AAAAAATATCAATTTAAAATCAATAATGAGATTATTAA
1 TTATAATATATTTTAACCAAAAATGTAAAAAAAT-TCAACTTAAAATCAATTATGAGATTATAAA
* * * *
578145 ATCATTTAAAGTGAGTAATAAGGCTTTCGAAGACTTGAGTGACTATCAATGGACTTTTCTTA-TC
65 ACCATTTAAAGCGAGTAATAAGGCTTTC-AAGGCTTGAGTGACTATAAATGGACTTTTCTTACT-
* * * *
578209 AATGGATAGCTTTTGCTTCACGTTT-TCTAAGGCAAATATTCTA-
128 AATGGATGGCTTTTGCTTCATGTTTCT-TGAGGCAAACATTC-AG
* * ** * * *
578252 ATATAATCTATTTTAATAAAAAATTTAAAAAAATTCAACTTAGAATCAATAATGAGATTATAAAA
1 TTATAATATATTTTAACCAAAAATGTAAAAAAATTCAACTTAAAATCAATTATGAGATTAT-AAA
* *
578317 ACCATTTAAAGCGAGTAATAAGGCTTTCAAAGGCTTGAGTGACTATAAATAGATTTTTCTTACTA
65 ACCATTTAAAGCGAGTAATAAGGCTTTC-AAGGCTTGAGTGACTATAAATGGACTTTTCTTACTA
* * * * * *
578382 ATGGATAGCTTTTGATTCATGTTTCTTGAAGTAGACATTCAA
129 ATGGATGGCTTTTGCTTCATGTTTCTTGAGGCAAACATTCAG
*** ** *
578424 TTATAATATATTTT-ATTTAAAATGTAAAAAAATTCAACTTAAAATCAATTATGAGGCTATTAAA
1 TTATAATATATTTTAACCAAAAATGTAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAA
* * * * ** * * *
578488 CTATTCAACA-CAAGTAATAAGGCTTTCGAAAGAAT-AGATGGCTATAAATAGACTTTTCTT-GT
66 CCATTTAA-AGCGAGTAATAAGGCTTTC-AAGGCTTGAG-TGACTATAAATGGACTTTTCTTACT
* * * * * * *** *
578550 CGATGAATAGCTTTTTCTCCATATTTCCCAAGACAAACATTCAAG
128 -AATGGATGGCTTTTGCTTCATGTTTCTTGAGGCAAACATTC-AG
* * * ** * * * * * * *
578595 -TATATTCTGTTTTAATAAAAAATTTTATAAAATTAAACTTAAAATCAATAATCAGATTATACAA
1 TTATAATATATTTTAACCAAAAATGTAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAA
* * * *
578659 CCATTTAAAGTGAGTAATAAGGCTTCTGAAGGCTTCAGTGACTATAAATGGACTTTTCTT-GTCA
66 CCATTTAAAGCGAGTAATAAGGCTT-TCAAGGCTTGAGTGACTATAAATGGACTTTTCTTACT-A
* ** *
578723 ATGGATGGTTTTTGCTTCATGTTTCCCGAGGCAGACATTCAG
129 ATGGATGGCTTTTGCTTCATGTTTCTTGAGGCAAACATTCAG
* *
578765 TTATAATTTATTTTAACCAAAAATGTAAAAAAATTCAACTTAAAATCAATTATGAGACTATAAAA
1 TTATAATATATTTTAACCAAAAATGTAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAA
* * * * * * * *
578830 CCATTTAAAGTGAGTAATATGGCTTTTAAATGCTTGAGTGACTATAAATGAAATTTTCTCACAAA
66 CCATTTAAAGCGAGTAATAAGGC-TTTCAAGGCTTGAGTGACTATAAATGGACTTTTCTTACTAA
* * * * * **
578895 TGGATGTCGTTTACTTCAAGTTTATCAAGGCAAACATTCAG
130 TGGATGGCTTTTGCTTCATGTTTCTTGAGGCAAACATTCAG
* * * **********
578936 TTATAAT-TTTTTTAATCAAAAATAT-AAAAAATTCAACTTAAAATCANNNNNNNNNNTATAAAA
1 TTATAATATATTTTAACCAAAAATGTAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAA
* * * * *
578999 CCATTTAAAGCGAGCAATAAGGCTTTCAATAGCTTGGGTGACTAT-AATGGACTTTTTTTACCAA
66 CCATTTAAAGCGAGTAATAAGGCTTTCAA-GGCTTGAGTGACTATAAATGGACTTTTCTTACTAA
* * * * *
579063 TGGATGGCTTTTGCTTCATGTTTTTTGAGGTAGACTTTCAA
130 TGGATGGCTTTTGCTTCATGTTTCTTGAGGCAAACATTCAG
* * *
579104 ATATAATTTATTTTAACCAAAAAT-TAAAAAAAATT-AACTTAAATTCAATTATGAGATTATAAA
1 TTATAATATATTTTAACCAAAAATGT-AAAAAAATTCAACTTAAAATCAATTATGAGATTATAAA
* * * *** * * * * *
579167 ACAATTTAAAGCTAATAATAAATTTTTGGAGGGCTTGTGTGGCTATAAATGGACTTTTTTTACTA
65 ACCATTTAAAGCGAGTAATAAGGCTTT-CAAGGCTTGAGTGACTATAAATGGACTTTTCTTACTA
* ** * * *
579232 ATGGATGGCTTTTCCTTTGTGTTTCTCGAGACAAGCATTCAG
129 ATGGATGGCTTTTGCTTCATGTTTCTTGAGGCAAACATTCAG
* * * * * *
579274 TTATAATATATTTTAACCAAAAATGTAAAAACATTTAACTTAAAATAAATTATCAAATCATAAAA
1 TTATAATATATTTTAACCAAAAATGTAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAA
** ********** * * *
579339 TAATNNNNNNNNNNTAATAAGACTTTCAAAGGCTTGAGTGACTATAAATGGACTTTTATT-GTCA
66 CCATTTAAAGCGAGTAATAAGGCTTTC-AAGGCTTGAGTGACTATAAATGGACTTTTCTTACT-A
* * * ** ** * *
579403 ATGAAAGGCTTTTGCTTCATGTTTCTCGAGATAGGCGTTCAA
129 ATGGATGGCTTTTGCTTCATGTTTCTTGAGGCAAACATTCAG
* * * * *
579445 ATATAATCTGTTTTAATCAAAAATATAAAAAAATTCAACTTAAAATCAA
1 TTATAATATATTTTAACCAAAAATGTAAAAAAATTCAACTTAAAATCAA
579494 NNNNNNNNNN
Statistics
Matches: 1956, Mismatches: 432, Indels: 107
0.78 0.17 0.04
Matches are distributed among these distances:
168 56 0.03
169 131 0.07
170 355 0.18
171 1140 0.58
172 126 0.06
173 4 0.00
174 3 0.00
175 138 0.07
176 3 0.00
ACGTcount: A:0.39, C:0.12, G:0.13, T:0.35
Consensus pattern (170 bp):
TTATAATATATTTTAACCAAAAATGTAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAA
CCATTTAAAGCGAGTAATAAGGCTTTCAAGGCTTGAGTGACTATAAATGGACTTTTCTTACTAAT
GGATGGCTTTTGCTTCATGTTTCTTGAGGCAAACATTCAG
Found at i:580443 original size:171 final size:170
Alignment explanation
Indices: 579724--580661 Score: 693
Period size: 170 Copynumber: 5.5 Consensus size: 170
579714 AGGTGTTATA
* * * * *
579724 AAAAGTCCATTTATAGTCATTCAAGCCATT-GAAACCCTTATTACTTGATTTAAATAGTTTTATA
1 AAAAGTCCATTTATAGTCACTCAAGCC-TTCGAAAACCTTATTACTCGCTTTAAATGGTTTTATA
********** * *
579788 ATCTNNNNNNNNNNTTTAAGTTGAATTTTTTTACATTTTGA-TTAAAATAAATTATAATTGAATG
65 ATCTCATAATTGATTTTAAGTTAAATTTTTTTACATTTTTATTTAAAATAAATTATAATTGAATG
* * * * *
579852 TTTGCCTTGAGAAACTTGAAGTAAAACACATCCATTGACAAG
130 TCTGCCTTGGGAAACATGAAGCAAAGC-CATCCATTGACAAG
********** *
579894 AAAAGTCCATTTATAGTCACTCAAGCCTTCGANNNNNNNNNNACTCGCTTTAAATGGTTTTATAG
1 AAAAGTCCATTTATAGTCACTCAAGCCTTCGAAAACCTTATTACTCGCTTTAAATGGTTTTATAA
* * * * *
579959 TCTCATAATTGATTTTAAGTTGATTGTTTTTTACATTTTT-TGCTAAAATAAATTGTAACTGAAT
66 TCTCATAATTGATTTTAAGTTAAAT-TTTTTTACATTTTTAT-TTAAAATAAATTATAATTGAAT
* ********* *
580023 GTCTACCTTGGGAAANNNNNNNNNNAAGCCACCCATTGACAAG
129 GTCTGCCTTGGGAAA-CATGAAGCAAAGCCATCCATTGACAAG
* * * * * *
580066 AAAAGTCCATTTATAGTCACTGAAGCCTTCGAAAACCTTTTTACTCACTTTCAACGGTTTTACAA
1 AAAAGTCCATTTATAGTCACTCAAGCCTTCGAAAACCTTATTACTCGCTTTAAATGGTTTTATAA
* * * * * * * * ** * *
580131 TCTGATTACTAATTTTAAGTTTAATTTTATAAAATTTTTGGTTAAAATAGATTATATTTG-ATGT
66 TCTCATAATTGATTTTAAGTTAAATTTTTTTACATTTTTATTTAAAATAAATTATAATTGAATGT
* *** * * * ** *
580195 CTGTCTCAAGAAATATGAAGAAAAAGCCATTCATCAAAAAG
131 CTGCCTTGGGAAACATGAAG-CAAAGCCATCCATTGACAAG
* * * ** * * * * * * *
580236 AAAAGTCTATTTATCGTCACCCATTCTTTGGAAAGCCTTATTACTTGCTTTGAATGGTTTGATAG
1 AAAAGTCCATTTATAGTCACTCAAGCCTTCGAAAACCTTATTACTCGCTTTAAATGGTTTTATAA
* *
580301 CCTCATAATTGATTTTAAGTTAAATTTTTTTACATTTTTATTTAAAATATATTATAATTGAATGT
66 TCTCATAATTGATTTTAAGTTAAATTTTTTTACATTTTTATTTAAAATAAATTATAATTGAATGT
* *
580366 CTGCATTGGGAAACATGAATCAAAGGCCATCCATTGACAAG
131 CTGCCTTGGGAAACATGAAGCAAA-GCCATCCATTGACAAG
* * * * * * * *
580407 AAAAGTCTATTTATAATTACTCAAGCCTTTGAAAGCCTTATTAGTAGCTTCAAATGGTTTTATAA
1 AAAAGTCCATTTATAGTCACTCAAGCCTTCGAAAACCTTATTACTCGCTTTAAATGGTTTTATAA
* * * * *
580472 TCTCATTATCGATTTTAAGTTAAATTTTTTTGA-A-TTTCAATTAAAACAAATTAT-ATTAGAAT
66 TCTCATAATTGATTTTAAGTTAAATTTTTTT-ACATTTTTATTTAAAATAAATTATAATT-GAAT
* ** * * * *
580534 ATCTGCCTCAGAAAACGTGAAGCAAAAGTCATCCATTGATAAG
129 GTCTGCCTTGGGAAACATGAAGC-AAAGCCATCCATTGACAAG
* * *
580577 AAAAGTCCATTTATAGTCACTCTAGCCTTCGAAAACCTTATTACTCTCTTTAAATAGTTTTATAA
1 AAAAGTCCATTTATAGTCACTCAAGCCTTCGAAAACCTTATTACTCGCTTTAAATGGTTTTATAA
580642 TCTCATAATTGATTTTAAGT
66 TCTCATAATTGATTTTAAGT
580662 NNNNNNNNNN
Statistics
Matches: 577, Mismatches: 179, Indels: 24
0.74 0.23 0.03
Matches are distributed among these distances:
169 5 0.01
170 306 0.53
171 150 0.26
172 113 0.20
173 3 0.01
ACGTcount: A:0.34, C:0.14, G:0.12, T:0.37
Consensus pattern (170 bp):
AAAAGTCCATTTATAGTCACTCAAGCCTTCGAAAACCTTATTACTCGCTTTAAATGGTTTTATAA
TCTCATAATTGATTTTAAGTTAAATTTTTTTACATTTTTATTTAAAATAAATTATAATTGAATGT
CTGCCTTGGGAAACATGAAGCAAAGCCATCCATTGACAAG
Found at i:583645 original size:8 final size:8
Alignment explanation
Indices: 583633--583680 Score: 53
Period size: 8 Copynumber: 6.0 Consensus size: 8
583623 AAGTGAGAAG
*
583633 AGAAAGGG
1 AGAAAGGA
*
583641 AGAAAGAA
1 AGAAAGGA
583649 AGAAAAGG-
1 AG-AAAGGA
*
583657 AGAAAGAA
1 AGAAAGGA
583665 AGAAAGGA
1 AGAAAGGA
583673 AGAAAGGA
1 AGAAAGGA
583681 GGAAGAAGAA
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
7 4 0.12
8 25 0.76
9 4 0.12
ACGTcount: A:0.65, C:0.00, G:0.35, T:0.00
Consensus pattern (8 bp):
AGAAAGGA
Found at i:583658 original size:16 final size:16
Alignment explanation
Indices: 583628--583678 Score: 68
Period size: 16 Copynumber: 3.1 Consensus size: 16
583618 AAACAAAGTG
*
583628 AGAAGAGAAAGGGAGAA
1 AGAA-AGAAAAGGAGAA
583645 AGAAAGAAAAGGAGAA
1 AGAAAGAAAAGGAGAA
583661 AGAAAG-AAAGGAAGAA
1 AGAAAGAAAAGG-AGAA
583677 AG
1 AG
583679 GAGGAAGAAG
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
15 5 0.16
16 23 0.72
17 4 0.12
ACGTcount: A:0.65, C:0.00, G:0.35, T:0.00
Consensus pattern (16 bp):
AGAAAGAAAAGGAGAA
Found at i:627679 original size:31 final size:31
Alignment explanation
Indices: 627644--627737 Score: 107
Period size: 31 Copynumber: 3.0 Consensus size: 31
627634 AGAAAGAAAT
* * **
627644 AAATGTTGTTACACGCTATGCATATCGTGTA
1 AAATGTTGTTACACACCATGCATATCAAGTA
627675 AAATGTTGTTACACACCATGCATATCAAGTA
1 AAATGTTGTTACACACCATGCATATCAAGTA
* * ** *
627706 AATTGTTGTTAAATGCCATGCATGTCAAGTA
1 AAATGTTGTTACACACCATGCATATCAAGTA
627737 A
1 A
627738 GTAAAATATT
Statistics
Matches: 54, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 54 1.00
ACGTcount: A:0.34, C:0.16, G:0.17, T:0.33
Consensus pattern (31 bp):
AAATGTTGTTACACACCATGCATATCAAGTA
Found at i:628499 original size:23 final size:22
Alignment explanation
Indices: 628471--628527 Score: 87
Period size: 23 Copynumber: 2.5 Consensus size: 22
628461 TTCTATTTCA
628471 AACCATGGCATGTCACATATTC
1 AACCATGGCATGTCACATATTC
*
628493 AAGCCATGCCATGTCACATATTCC
1 AA-CCATGGCATGTCACATATT-C
628517 AACCATGGCAT
1 AACCATGGCAT
628528 CTCATAAACT
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
22 2 0.06
23 26 0.84
24 3 0.10
ACGTcount: A:0.32, C:0.30, G:0.14, T:0.25
Consensus pattern (22 bp):
AACCATGGCATGTCACATATTC
Found at i:628821 original size:47 final size:47
Alignment explanation
Indices: 628770--628870 Score: 123
Period size: 47 Copynumber: 2.1 Consensus size: 47
628760 TCACCTTTCA
* *
628770 TGTCATAGATTCCTTCCATGGCATATCACAAACTCTAAAC-CTTACCG
1 TGTCATAGATTCCCTCCATAGCATATCACAAACTCTAAACAC-TACCG
* * * * *
628817 TGTCACAGATTCCCTCTATAGCATGTCACAAATTCTAAACACTGCCG
1 TGTCATAGATTCCCTCCATAGCATATCACAAACTCTAAACACTACCG
628864 TGTCATA
1 TGTCATA
628871 TATGCTCACC
Statistics
Matches: 45, Mismatches: 8, Indels: 2
0.82 0.15 0.04
Matches are distributed among these distances:
47 44 0.98
48 1 0.02
ACGTcount: A:0.30, C:0.29, G:0.12, T:0.30
Consensus pattern (47 bp):
TGTCATAGATTCCCTCCATAGCATATCACAAACTCTAAACACTACCG
Found at i:628930 original size:23 final size:23
Alignment explanation
Indices: 628877--628965 Score: 103
Period size: 23 Copynumber: 4.0 Consensus size: 23
628867 CATATATGCT
* *
628877 CACCATGCCATCTCACATATTCA
1 CACCATGGCATGTCACATATTCA
628900 CACCATGGCATGTCACATATTCA
1 CACCATGGCATGTCACATATTCA
*
628923 CACCATGGCATGCCACAT-TCTCA
1 CACCATGGCATGTCACATAT-TCA
* *
628946 CA-C-TAGCACGTCACATATTC
1 CACCATGGCATGTCACATATTC
628966 TAACCACGTC
Statistics
Matches: 58, Mismatches: 6, Indels: 6
0.83 0.09 0.09
Matches are distributed among these distances:
21 12 0.21
22 3 0.05
23 43 0.74
ACGTcount: A:0.29, C:0.36, G:0.10, T:0.25
Consensus pattern (23 bp):
CACCATGGCATGTCACATATTCA
Found at i:629115 original size:23 final size:23
Alignment explanation
Indices: 629081--629146 Score: 87
Period size: 23 Copynumber: 2.9 Consensus size: 23
629071 GTCAAAATCG
* * *
629081 TGTCACATATTCTCACTATGACA
1 TGTCACACATTCCCACCATGACA
*
629104 TGTCACACATTCCCACCATGCCA
1 TGTCACACATTCCCACCATGACA
*
629127 TGTCACACATTTCCACCATG
1 TGTCACACATTCCCACCATG
629147 CTGTTCCATG
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 38 1.00
ACGTcount: A:0.27, C:0.35, G:0.09, T:0.29
Consensus pattern (23 bp):
TGTCACACATTCCCACCATGACA
Found at i:632458 original size:31 final size:31
Alignment explanation
Indices: 632423--632539 Score: 144
Period size: 31 Copynumber: 3.6 Consensus size: 31
632413 AGAAAGAAAT
*
632423 AAATGTTGTTACACGCTATGCATATCGAGTA
1 AAATGTTGTTACACGCCATGCATATCGAGTA
* *
632454 AAATGTTGTTACACACCATGCATATCAAGTA
1 AAATGTTGTTACACGCCATGCATATCGAGTA
* *
632485 AAATGTTGTTACATGCCATGCATGTCAAGTAAGTA
1 AAATGTTGTTACACGCCATGCATATC--G--AGTA
*
632520 AAATATTGTTACACGCCATG
1 AAATGTTGTTACACGCCATG
632540 TATACTAAGT
Statistics
Matches: 73, Mismatches: 9, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
31 51 0.70
35 22 0.30
ACGTcount: A:0.35, C:0.17, G:0.17, T:0.31
Consensus pattern (31 bp):
AAATGTTGTTACACGCCATGCATATCGAGTA
Found at i:632540 original size:31 final size:31
Alignment explanation
Indices: 632423--632568 Score: 102
Period size: 31 Copynumber: 4.6 Consensus size: 31
632413 AGAAAGAAAT
* * *
632423 AAATGTTGTTACACGCTATG-CATATCGAGTA
1 AAATATTGTTACACGCCATGTCATAT-AAGTA
* *
632454 AAATGTTGTTACACACCATG-CATATCAAGTA
1 AAATATTGTTACACGCCATGTCATAT-AAGTA
* *
632485 AAATGTTGTTACATGCCATG-CATGTCAAGTAAGTA
1 AAATATTGTTACACGCCATGTCA--T--A-TAAGTA
*
632520 AAATATTGTTACACGCCATGT-ATACTAAGTC
1 AAATATTGTTACACGCCATGTCATA-TAAGTA
* *
632551 AAGTATTGTTACATGCCA
1 AAATATTGTTACACGCCA
632569 ACCATGGCAT
Statistics
Matches: 98, Mismatches: 11, Indels: 12
0.81 0.09 0.10
Matches are distributed among these distances:
31 70 0.71
33 2 0.02
35 25 0.26
36 1 0.01
ACGTcount: A:0.35, C:0.17, G:0.16, T:0.32
Consensus pattern (31 bp):
AAATATTGTTACACGCCATGTCATATAAGTA
Found at i:633284 original size:23 final size:23
Alignment explanation
Indices: 633258--633315 Score: 98
Period size: 23 Copynumber: 2.5 Consensus size: 23
633248 TTTCTATTTG
633258 AAACCATGGCATGTCACATATTC
1 AAACCATGGCATGTCACATATTC
*
633281 AAACCATGCCATGTCACATATTC
1 AAACCATGGCATGTCACATATTC
*
633304 CAACCATGGCAT
1 AAACCATGGCAT
633316 CTCATAAACT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.34, C:0.29, G:0.12, T:0.24
Consensus pattern (23 bp):
AAACCATGGCATGTCACATATTC
Found at i:633715 original size:46 final size:46
Alignment explanation
Indices: 633665--633877 Score: 177
Period size: 46 Copynumber: 4.7 Consensus size: 46
633655 CATATAGGCT
*
633665 CACCATGCCGTTTCACATATTCACACCATGGCATGTCACATATTCA
1 CACCATGCCGTGTCACATATTCACACCATGGCATGTCACATATTCA
* * * *
633711 CACCATGGCATGCCACATATTCACACCATGGCATGCCACATATTCA
1 CACCATGCCGTGTCACATATTCACACCATGGCATGTCACATATTCA
*** *
633757 CACCATGGAATGTCACAT-TCTCACA-C-TAGCATGTCACATATTCTA
1 CACCATGCCGTGTCACATAT-TCACACCATGGCATGTCACATATTC-A
* * * * * *
633802 -ACCACGTCGTCTCACATATTC-CTATCGA-GTCATGTCACATATTCT
1 CACCATGCCGTGTCACATATTCAC-A-CCATGGCATGTCACATATTCA
* * * *
633847 CACCTTGCTGTGTCACATATTCCCTCCATGG
1 CACCATGCCGTGTCACATATTCACACCATGG
633878 TATGCGACAA
Statistics
Matches: 131, Mismatches: 26, Indels: 20
0.74 0.15 0.11
Matches are distributed among these distances:
43 1 0.01
44 30 0.23
45 6 0.05
46 93 0.71
47 1 0.01
ACGTcount: A:0.27, C:0.32, G:0.12, T:0.29
Consensus pattern (46 bp):
CACCATGCCGTGTCACATATTCACACCATGGCATGTCACATATTCA
Found at i:633800 original size:23 final size:23
Alignment explanation
Indices: 633677--633799 Score: 180
Period size: 23 Copynumber: 5.4 Consensus size: 23
633667 CCATGCCGTT
633677 TCACATATTCACACCATGGCATG
1 TCACATATTCACACCATGGCATG
633700 TCACATATTCACACCATGGCATG
1 TCACATATTCACACCATGGCATG
*
633723 CCACATATTCACACCATGGCATG
1 TCACATATTCACACCATGGCATG
* *
633746 CCACATATTCACACCATGGAATG
1 TCACATATTCACACCATGGCATG
*
633769 TCACAT-TCTCACA-C-TAGCATG
1 TCACATAT-TCACACCATGGCATG
633790 TCACATATTC
1 TCACATATTC
633800 TAACCACGTC
Statistics
Matches: 93, Mismatches: 5, Indels: 6
0.89 0.05 0.06
Matches are distributed among these distances:
21 13 0.14
22 3 0.03
23 77 0.83
ACGTcount: A:0.31, C:0.32, G:0.11, T:0.26
Consensus pattern (23 bp):
TCACATATTCACACCATGGCATG
Found at i:633839 original size:23 final size:24
Alignment explanation
Indices: 633786--633845 Score: 70
Period size: 23 Copynumber: 2.6 Consensus size: 24
633776 CTCACACTAG
633786 CATGTCACATATT-CTAACCACGT
1 CATGTCACATATTCCTAACCACGT
* * * *
633809 CGTCTCACATATTCCTATCGA-GT
1 CATGTCACATATTCCTAACCACGT
633832 CATGTCACATATTC
1 CATGTCACATATTC
633846 TCACCTTGCT
Statistics
Matches: 30, Mismatches: 6, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
23 25 0.83
24 5 0.17
ACGTcount: A:0.27, C:0.30, G:0.10, T:0.33
Consensus pattern (24 bp):
CATGTCACATATTCCTAACCACGT
Found at i:633981 original size:23 final size:23
Alignment explanation
Indices: 633913--633981 Score: 93
Period size: 23 Copynumber: 3.0 Consensus size: 23
633903 GTGTCACAAT
* * * *
633913 CGTGTCACATATTCTCACTATGA
1 CGTGTCACACATTCCCACCATGC
*
633936 CATGTCACACATTCCCACCATGC
1 CGTGTCACACATTCCCACCATGC
633959 CGTGTCACACATTCCCACCATGC
1 CGTGTCACACATTCCCACCATGC
633982 TGTTCCATAA
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 40 1.00
ACGTcount: A:0.25, C:0.38, G:0.12, T:0.26
Consensus pattern (23 bp):
CGTGTCACACATTCCCACCATGC
Found at i:637214 original size:18 final size:19
Alignment explanation
Indices: 637180--637216 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
637170 TGGATTTGGG
*
637180 TATTTTTGAAAGGCTAGGA
1 TATTTTTGAAAGACTAGGA
637199 TATTTTTGAAA-ACTAGGA
1 TATTTTTGAAAGACTAGGA
637217 AATAATTATG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 6 0.35
19 11 0.65
ACGTcount: A:0.35, C:0.05, G:0.22, T:0.38
Consensus pattern (19 bp):
TATTTTTGAAAGACTAGGA
Found at i:647181 original size:18 final size:19
Alignment explanation
Indices: 647158--647194 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
647148 CATAATTATT
647158 TCCTAG-CTTTCAAAAATA
1 TCCTAGCCTTTCAAAAATA
*
647176 TCCTAGCCTTTTAAAAATA
1 TCCTAGCCTTTCAAAAATA
647195 CCCAAATCCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 6 0.35
19 11 0.65
ACGTcount: A:0.38, C:0.22, G:0.05, T:0.35
Consensus pattern (19 bp):
TCCTAGCCTTTCAAAAATA
Found at i:650682 original size:36 final size:36
Alignment explanation
Indices: 650631--650724 Score: 170
Period size: 36 Copynumber: 2.6 Consensus size: 36
650621 TGACAACCTT
*
650631 TCAATGTACAATTTATTAGTGTAATTCATTCCTTCA
1 TCAATGTACAGTTTATTAGTGTAATTCATTCCTTCA
*
650667 TCAATGCACAGTTTATTAGTGTAATTCATTCCTTCA
1 TCAATGTACAGTTTATTAGTGTAATTCATTCCTTCA
650703 TCAATGTACAGTTTATTAGTGT
1 TCAATGTACAGTTTATTAGTGT
650725 CTACTTTTCT
Statistics
Matches: 55, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 55 1.00
ACGTcount: A:0.29, C:0.16, G:0.12, T:0.44
Consensus pattern (36 bp):
TCAATGTACAGTTTATTAGTGTAATTCATTCCTTCA
Found at i:669385 original size:35 final size:36
Alignment explanation
Indices: 669321--669388 Score: 93
Period size: 35 Copynumber: 1.9 Consensus size: 36
669311 AAATACAAAT
* *
669321 CATGCTCATGCTGAAGCAACAAGAGGAGAATTAAAA
1 CATGCACATGCTGAAGCAACAAGAAGAGAATTAAAA
**
669357 CATGCACATG-TGAAGCAACGGGAAGAGAATTA
1 CATGCACATGCTGAAGCAACAAGAAGAGAATTA
669389 GATCACGCAT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
35 19 0.68
36 9 0.32
ACGTcount: A:0.43, C:0.16, G:0.25, T:0.16
Consensus pattern (36 bp):
CATGCACATGCTGAAGCAACAAGAAGAGAATTAAAA
Found at i:692982 original size:89 final size:89
Alignment explanation
Indices: 692829--692996 Score: 241
Period size: 89 Copynumber: 1.9 Consensus size: 89
692819 TGATGATAAA
*
692829 TTTGATGTACTATATATACAAAATTTTTATTGATGTACAATAACAAAAATTATAAATAAAATATA
1 TTTGATGTACTATAAATAC-AAATTTTTATTGATGTACAATAACAAAAATTATAAA-AAAATATA
692894 TATGTAATAGTATATATAATCACAAT
64 TATGTAATAGTATATATAATCACAAT
* * * * *
692920 TTTGATGTACTATAAATAC-AATTTTTGTTGGTGTACAATAAGAAAACTTAT-AAAATATATATA
1 TTTGATGTACTATAAATACAAATTTTTATTGATGTACAATAACAAAAATTATAAAAAAATATATA
*
692983 TGTAATATTATATA
66 TGTAATAGTATATA
692997 GAACTATACA
Statistics
Matches: 70, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
87 22 0.31
88 2 0.03
89 28 0.40
91 18 0.26
ACGTcount: A:0.46, C:0.06, G:0.08, T:0.40
Consensus pattern (89 bp):
TTTGATGTACTATAAATACAAATTTTTATTGATGTACAATAACAAAAATTATAAAAAAATATATA
TGTAATAGTATATATAATCACAAT
Found at i:693032 original size:89 final size:89
Alignment explanation
Indices: 692827--693040 Score: 224
Period size: 89 Copynumber: 2.4 Consensus size: 89
692817 AATGATGATA
692827 AATTTGATGTACTATATATAC-AAAATTTTTATTGATGTACAATAACAAAAATTATAAATAAAAT
1 AATTTGATGTA-T-TATATACAAAAATTTTTATTGATGTACAATAACAAAAATTATAAATAAAAT
*
692891 ATATATGTAATAGTATATATAATCAC
64 ATATATGTAATAGTATATAGAATCAC
* * * * * * *
692917 AATTTTGATGTACTATA-A-ATACAATTTTTGTTGGTGTACAATAAGAAAACTTAT-AA-AATAT
1 AA-TTTGATGTATTATATACA-AAAATTTTTATTGATGTACAATAACAAAAATTATAAATAAAAT
* *
692978 ATATATGTAATATTATATAGAA-CTAT
64 ATATATGTAATAGTATATAGAATC-AC
*
693004 ACATTTGATGTATTATATACAAATAATTTTTAATGAT
1 A-ATTTGATGTATTATATACAAA-AATTTTTATTGAT
693041 TCAGAAGAAC
Statistics
Matches: 101, Mismatches: 15, Indels: 17
0.76 0.11 0.13
Matches are distributed among these distances:
86 1 0.01
87 39 0.39
88 6 0.06
89 44 0.44
90 2 0.02
91 9 0.09
ACGTcount: A:0.45, C:0.06, G:0.08, T:0.40
Consensus pattern (89 bp):
AATTTGATGTATTATATACAAAAATTTTTATTGATGTACAATAACAAAAATTATAAATAAAATAT
ATATGTAATAGTATATAGAATCAC
Found at i:693298 original size:123 final size:119
Alignment explanation
Indices: 693006--693331 Score: 374
Period size: 123 Copynumber: 2.7 Consensus size: 119
692996 AGAACTATAC
* * ** * **
693006 ATTTGATGTATTATATA-CAAATAATTTTTAATGATTCAGAAGAACATCAATT-ATATATATCGT
1 ATTTGATGTACTATATAGC--ATAATTTTTAATGATTTAGAAGAACATGGATTAATATAGAGAGT
* * *
693069 TATAAAGTATATATAGTGATAAACTTGAAACTTTTCAAAAAAATTATTAATGATAA
64 TATAAATTATATATAATGACAAACTTGAAACTTTTCAAAAAAATTATTAATGATAA
* *
693125 ATTTGATCTACT-TATTATGCATAATTTTTAATGATTTAGAAGAACTTGGATTAGATATAGAGAG
1 ATTTGATGTACTATA-TA-GCATAATTTTTAATGATTTAGAAGAACATGGATTA-ATATAGAGAG
* * *
693189 TTATCAATTATATATAATGACAAAGTTGAAACTTTTCAAAAAAATATATATTAATGATAG
63 TTATAAATTATATATAATGACAAACTTGAAACTTTTC-AAAAAA-AT-TATTAATGATAA
*
693249 ATTTGATGTACTATATAGCATAACTTTTAATGATTTAGAAGAACATGGATTATATTTATAG-GA-
1 ATTTGATGTACTATATAGCATAATTTTTAATGATTTAGAAGAACATGGATTA-A--TATAGAGAG
693312 TTATAAATTATATATAATGA
63 TTATAAATTATATATAATGA
693332 TAAANNNNNN
Statistics
Matches: 176, Mismatches: 20, Indels: 18
0.82 0.09 0.08
Matches are distributed among these distances:
118 2 0.01
119 40 0.23
121 40 0.23
122 6 0.03
123 55 0.31
124 26 0.15
125 7 0.04
ACGTcount: A:0.43, C:0.06, G:0.12, T:0.39
Consensus pattern (119 bp):
ATTTGATGTACTATATAGCATAATTTTTAATGATTTAGAAGAACATGGATTAATATAGAGAGTTA
TAAATTATATATAATGACAAACTTGAAACTTTTCAAAAAAATTATTAATGATAA
Found at i:708027 original size:51 final size:51
Alignment explanation
Indices: 707951--708071 Score: 125
Period size: 51 Copynumber: 2.4 Consensus size: 51
707941 GATAGACGAG
* * *
707951 TGGCATTTATCGATAAATAGTCACCCAAGAACAATTCAAAAAGACCTTGAC
1 TGGCATCTATCGATAAATAGCCACCCAAGAACAATCCAAAAAGACCTTGAC
* * * ** ** * *
708002 TTGCATCTATCGATAAGTGGCCACCCGCGTGCACTCCAAAAAGCCCTTGAC
1 TGGCATCTATCGATAAATAGCCACCCAAGAACAATCCAAAAAGACCTTGAC
*
708053 TGGCATCTATCAATAAATA
1 TGGCATCTATCGATAAATA
708072 CTTATATCTA
Statistics
Matches: 54, Mismatches: 16, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
51 54 1.00
ACGTcount: A:0.35, C:0.26, G:0.16, T:0.24
Consensus pattern (51 bp):
TGGCATCTATCGATAAATAGCCACCCAAGAACAATCCAAAAAGACCTTGAC
Found at i:722663 original size:120 final size:119
Alignment explanation
Indices: 722520--722738 Score: 300
Period size: 120 Copynumber: 1.8 Consensus size: 119
722510 ATAATTAACT
* * * *
722520 AAATATTATTTACATTTAAACAATATTA-TTAATTCAATTACTTGCTTCA-TTAATAAAA-CATT
1 AAATATTATTTAAAATTAAACAATATTACTAAATT-AATTAATTGCTT-AGTTAATAAAACCA-T
* * * *
722582 TTTTTCATAATTAATATTAAATTTTACTAAATTTACTAAATAATATTAATTACCATTA
63 ATTTTAATAAATAATATGAAATTTTACT-AATTTACTAAATAATATTAATTACCATTA
*
722640 AAATATTATTTAAAATTACACAATATTACTAAATTAATTAATTGCTTAGTTAATAAAACCATATT
1 AAATATTATTTAAAATTAAACAATATTACTAAATTAATTAATTGCTTAGTTAATAAAACCATATT
722705 TTAATAAATAATATGAAATTTTACTAATTTACTA
66 TTAATAAATAATATGAAATTTTACTAATTTACTA
722739 TTAGATTTGG
Statistics
Matches: 87, Mismatches: 9, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
119 10 0.11
120 70 0.80
121 7 0.08
ACGTcount: A:0.45, C:0.09, G:0.02, T:0.44
Consensus pattern (119 bp):
AAATATTATTTAAAATTAAACAATATTACTAAATTAATTAATTGCTTAGTTAATAAAACCATATT
TTAATAAATAATATGAAATTTTACTAATTTACTAAATAATATTAATTACCATTA
Found at i:723279 original size:263 final size:260
Alignment explanation
Indices: 722367--723332 Score: 849
Period size: 263 Copynumber: 3.6 Consensus size: 260
722357 ATCTTAATTT
* * * * * * * * *
722367 ATTTACATACTATTTAAAATTAAGCAATATTAGTAACTTAGTTATTTTCTTAATTACTAAAATAA
1 ATTTAAATATTATTTAAAATTAAACAATATTACTAATTTAGTTAATTGCTTAATTACTAAAACAT
* * * * *
722432 TTTTTAATAAATAATATTAAACTTTACTAAATTTAGTAATAAACTTT-GAATTGATTAATTACTA
66 TTTTTAATAAATAATAATAAATTTTACTAAATTTACTATTAGA-TTTGGAATTGATTAATTACTA
** * *
722496 ATACATGAATCTTCATAATTAACTAAATATTATTTACATTTAAACAATATTATTAATTCAATTAC
130 ATACATGAATCTTCATAATTAGGTAAATA--A---A-A-TTAAACAATATTTTTAATTCAATTAA
* * * *
722561 TTGCTTCATTAATAAAACATTTTTTTCATAATTAATATTAAATTTTACTAAATTTACTAAATAAT
188 TTGCATAATTAGTAAAACA-TTTTTTCATAATTAATTTTAAATTTTACTAAATTTACTAAATAAT
722626 ATTAATTACC
252 ATTAA-TACC
* * * * * *
722636 ATTAAAATATTATTTAAAATTACACAATATTACTAAATTAATTAATTGCTTAGTTAATAAAACCA
1 ATTTAAATATTATTTAAAATTAAACAATATTACTAATTTAGTTAATTGCTTAATTACTAAAA-CA
* *
722701 TATTTTAATAAATAAT-ATGAAATTTTACT-AATTTACTATTAGATTTGGAATTGATTAATCACT
65 TTTTTTAATAAATAATAAT-AAATTTTACTAAATTTACTATTAGATTTGGAATTGATTAATTACT
** * * * *
722764 AATACATGAATCTTCATAATTATTTAAATAAAA--CAACTTAAT-TTATTAAAATAACTGAAATA
129 AATACATGAATCTTCATAATTAGGTAAATAAAATTAAAC--AATATT-TT----TAATTCAATTA
** ** * * * * * *
722826 ATAT--ATAATATTAGTAATTCAATAATTGCTTAATTACTTTTATTAGTTAAGTTATTTAA-TTA
187 AT-TGCAT-A-ATTAGTAAAAC-ATTTTTTCATAATTAATTTTA--AATT---TTACTAAATTTA
* **
722888 CTCATAA-AATGCCTTAAT-TT
243 CT-A-AATAAT--ATTAATACC
* * *
722908 ATTTAAATATTATTTAAAATTGAACAATATTACTAATTTAGTTAATTGCTTAATTACAAAAAGAT
1 ATTTAAATATTATTTAAAATTAAACAATATTACTAATTTAGTTAATTGCTTAATTACTAAAACA-
* * * * * * *
722973 TTTTTTCATAAATAATAATATATTTTAATAAATTTAGTATTAGATATGGAATTCATTAATTTCTA
65 TTTTTTAATAAATAATAATAAATTTTACTAAATTTACTATTAGATTTGGAATTGATTAATTACTA
* * *
723038 ATACATGAATCTTAATAATTAGGTAAATAAAATTAAACAATATTTTTAATTCAATTAGTTGCGTA
130 ATACATGAATCTTCATAATTAGGTAAATAAAATTAAACAATATTTTTAATTCAATTAATTGCATA
*
723103 ATTAGTAAAACATTTTTTCATAAATAATTTTAAATTTTACTAAATTTACTAAATAATATTAATGA
195 ATTAGTAAAACATTTTTTCATAATTAATTTTAAATTTTACTAAATTTACTAAATAATATTAAT-A
*
723168 GC
259 CC
* * *
723170 ATTTAAGTGTTATTTAAAAAATAAACAATATTACTAATTTAGTTAATTGCTTAATTACTAAAACA
1 ATTTAAATATTATTT-AAAATTAAACAATATTACTAATTTAGTTAATTGCTTAATTACTAAAACA
* * * * *
723235 TTTTTTTCATAAATAATAACAAATTTGACTAAGA-TTACTATTAGATTTGGAATTGATTAGTTGC
65 -TTTTTTAATAAATAATAATAAATTTTACTAA-ATTTACTATTAGATTTGGAATTGATTAATTAC
* *
723299 TAATAAATGAATCTTCATAATTAGGTAAACAAAA
128 TAATACATGAATCTTCATAATTAGGTAAATAAAA
723333 CAACTTAATT
Statistics
Matches: 555, Mismatches: 105, Indels: 80
0.75 0.14 0.11
Matches are distributed among these distances:
260 8 0.01
261 4 0.01
262 27 0.05
263 135 0.24
264 2 0.00
265 4 0.01
266 9 0.02
267 39 0.07
268 14 0.03
269 118 0.21
270 25 0.05
271 6 0.01
272 86 0.15
273 69 0.12
274 6 0.01
275 3 0.01
ACGTcount: A:0.44, C:0.08, G:0.06, T:0.43
Consensus pattern (260 bp):
ATTTAAATATTATTTAAAATTAAACAATATTACTAATTTAGTTAATTGCTTAATTACTAAAACAT
TTTTTAATAAATAATAATAAATTTTACTAAATTTACTATTAGATTTGGAATTGATTAATTACTAA
TACATGAATCTTCATAATTAGGTAAATAAAATTAAACAATATTTTTAATTCAATTAATTGCATAA
TTAGTAAAACATTTTTTCATAATTAATTTTAAATTTTACTAAATTTACTAAATAATATTAATACC
Found at i:723363 original size:536 final size:534
Alignment explanation
Indices: 722114--723423 Score: 1504
Period size: 536 Copynumber: 2.4 Consensus size: 534
722104 CTGACTTCAA
* *** **
722114 TACTATAATTAATTAATTGCTTAATTACTTATGGATTTTTTCATAAATAATATTTAATTTTACTA
1 TACTA-AATTAATTAATTGCTTAATTACTAAAACATTTTTTCATAAATAATATCAAATTTTACTA
** *
722179 AATTTACTATTCTATTTTGAATTGATTAATTACTAATACATGAATCTTCATAATTAGGTAAATC-
65 AA-TTACTATTAGATTTGGAATTGATTAATTACTAATACATGAATCTTCATAATTAGGTAAA-CA
* * * ** * * *
722243 AAACCACTTAATTAATTTGAACGAGTAAAATAATACATAGTATTACTAATTTAAATAATTGCTTA
128 AAACAACTTAATT-TTTTAAATAACTAAAATAATATATAATATTACTAA-TTAAATAATTGCTTA
* * * ** *
722308 ATTACTTTGATTTCTTAATTAACTAAATTATTTAATTTCCTCTTTAAGCATCTTAATTTATTTAC
191 ATTAC------TT-TT-ATT-AGTTAATTATTTAA-TTACTCTAAAAGCA-CTTAATTTATTTAA
* * * * *
722373 ATACTATTTAAAATTAAGCAATATTAGTAACTTAGTTATTTTCTTAATTACTAAAATAATTTTTA
245 ATACTATTTAAAATTAAGCAATATTACTAACTTAGTTAATTGCTTAATTACAAAAAGAATTTTTA
* * * *
722438 ATAAATAATATTAAACTTTACTAAATTTAGTAATAAACTTTGAATTGATTAATTACTAATACATG
310 ATAAATAATAATAAACTTTAATAAATTTAGTAATAAACTTGGAATTCATTAATTACTAATACATG
* * *
722503 AATCTTCATAATTAACTAAATATTATTTACATTTAAACAATATTATTAATTCAATTACTTGCTTC
375 AATCTTAATAATTAACTAAATA-TA--TACATTTAAACAATATTATTAATTCAATTACTTGCGTA
* *
722568 ATTAATAAAACATTTTTTTCATAATTAATATTAAATTTTACTAAATTTACTAAATAATATTAATT
437 ATTAATAAAACATTTTTTTCATAAATAATATTAAATTTTACTAAATTTACTAAATAATATTAATG
* *
722633 ACCATTAAAATATTATTTAAAATTACACAATAT
502 ACCATTAAAATATTATTTAAAAATAAACAATAT
* * * * *
722666 TACTAAATTAATTAATTGCTTAGTTAATAAAACCATATTTTAATAAATAATATGAAATTTTACTA
1 TACTAAATTAATTAATTGCTTAATTACTAAAA-CATTTTTTCATAAATAATATCAAATTTTACTA
* * ** *
722731 ATTTACTATTAGATTTGGAATTGATTAATCACTAATACATGAATCTTCATAATTATTTAAATAAA
65 AATTACTATTAGATTTGGAATTGATTAATTACTAATACATGAATCTTCATAATTAGGTAAACAAA
* * * *
722796 ACAACTTAATTTATTAAAATAACTGAAATAATATATAATATTAGTAATTCAATAATTGCTTAATT
130 ACAACTTAATTT-TTTAAATAACTAAAATAATATATAATATTACTAATTAAATAATTGCTTAATT
*
722861 ACTTTTATTAGTTAAGTTATTTAATTACTCATAAAATGC-CTTAATTTATTTAAATATTATTTAA
194 ACTTTTATTAGTTAA-TTATTTAATTACTC-TAAAA-GCACTTAATTTATTTAAATACTATTTAA
* * *
722925 AATTGAA-CAATATTACTAATTTAGTTAATTGCTTAATTACAAAAAGATTTTTTTCATAAATAAT
256 AATT-AAGCAATATTACTAACTTAGTTAATTGCTTAATTACAAAAAGA-ATTTTTAATAAATAAT
* * * * *
722989 AATATATTTTAATAAATTTAGTATTAGA-TATGGAATTCATTAATTTCTAATACATGAATCTTAA
319 AATAAACTTTAATAAATTTAGTAATAAACT-TGGAATTCATTAATTACTAATACATGAATCTTAA
** * * *
723053 TAATTAGGTAAATA-A-A-A-TTAAACAATATTTTTAATTCAATTAGTTGCGTAATTAGTAAAAC
383 TAATTAACTAAATATATACATTTAAACAATATTATTAATTCAATTACTTGCGTAATTAATAAAAC
* * * *
723114 A-TTTTTTCATAAATAATTTTAAATTTTACTAAATTTACTAAATAATATTAATGAGCATTTAAGT
448 ATTTTTTTCATAAATAATATTAAATTTTACTAAATTTACTAAATAATATTAATGACCATTAAAAT
*
723178 GTTATTTAAAAAATAAACAATAT
513 ATTATTT-AAAAATAAACAATAT
* * * *
723201 TACTAATTTAGTTAATTGCTTAATTACTAAAACATTTTTTTCATAAATAATAACAAATTTGACTA
1 TACTAAATTAATTAATTGCTTAATTACTAAAACA-TTTTTTCATAAATAATATCAAATTTTACTA
* * *
723266 AGATTACTATTAGATTTGGAATTGATTAGTTGCTAATAAATGAATCTTCATAATTAGGTAAACAA
65 A-ATTACTATTAGATTTGGAATTGATTAATTACTAATACATGAATCTTCATAATTAGGTAAACAA
* * * *
723331 AACAACTTAATTCTTTTAAATAACTAAAATAATATATAATAATACTAATTTAATAGTTGGTTAAT
129 AACAACTTAATT-TTTTAAATAACTAAAATAATATATAATATTACTAATTAAATAATTGCTTAAT
* *
723396 TACTTTCAATAGTTACATTATTTAATTA
193 TACTTTTATTAGTTA-ATTATTTAATTA
723424 ACAAAATTAT
Statistics
Matches: 647, Mismatches: 97, Indels: 44
0.82 0.12 0.06
Matches are distributed among these distances:
534 65 0.10
535 107 0.17
536 136 0.21
537 3 0.00
540 1 0.00
541 71 0.11
542 94 0.15
543 4 0.01
544 2 0.00
550 19 0.03
551 112 0.17
552 33 0.05
ACGTcount: A:0.43, C:0.09, G:0.06, T:0.43
Consensus pattern (534 bp):
TACTAAATTAATTAATTGCTTAATTACTAAAACATTTTTTCATAAATAATATCAAATTTTACTAA
ATTACTATTAGATTTGGAATTGATTAATTACTAATACATGAATCTTCATAATTAGGTAAACAAAA
CAACTTAATTTTTTAAATAACTAAAATAATATATAATATTACTAATTAAATAATTGCTTAATTAC
TTTTATTAGTTAATTATTTAATTACTCTAAAAGCACTTAATTTATTTAAATACTATTTAAAATTA
AGCAATATTACTAACTTAGTTAATTGCTTAATTACAAAAAGAATTTTTAATAAATAATAATAAAC
TTTAATAAATTTAGTAATAAACTTGGAATTCATTAATTACTAATACATGAATCTTAATAATTAAC
TAAATATATACATTTAAACAATATTATTAATTCAATTACTTGCGTAATTAATAAAACATTTTTTT
CATAAATAATATTAAATTTTACTAAATTTACTAAATAATATTAATGACCATTAAAATATTATTTA
AAAATAAACAATAT
Found at i:725067 original size:80 final size:80
Alignment explanation
Indices: 724931--725098 Score: 248
Period size: 80 Copynumber: 2.1 Consensus size: 80
724921 TATAACATTT
*
724931 TCATAAATCA-TCATCATACTTAGCCCATAGTGTATATGACCATCTTAACACATACATATCATGG
1 TCATAAATCACTTA-CATACTTAGCCCATAGTGTATATGACCATCTTAACACATACATATCATGG
724995 CATACATTTCATAACC
65 CATACATTTCATAACC
* * * * * *
725011 TCCTAAATCACTTACATACTTTGTCCATAGTGTATATGACTATCTTAACACATACATCTTATGGC
1 TCATAAATCACTTACATACTTAGCCCATAGTGTATATGACCATCTTAACACATACATATCATGGC
*
725076 ATGCATTTCATAACC
66 ATACATTTCATAACC
725091 TCATAAAT
1 TCATAAAT
725099 AACTCACGTG
Statistics
Matches: 78, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
80 76 0.97
81 2 0.03
ACGTcount: A:0.35, C:0.24, G:0.08, T:0.34
Consensus pattern (80 bp):
TCATAAATCACTTACATACTTAGCCCATAGTGTATATGACCATCTTAACACATACATATCATGGC
ATACATTTCATAACC
Found at i:736240 original size:80 final size:79
Alignment explanation
Indices: 736102--736326 Score: 281
Period size: 80 Copynumber: 2.8 Consensus size: 79
736092 ATAACATTTC
* * *
736102 CATAAATCATCTTCATACTTAGCTCACAGTGTATATGACTATCTCAACACATACATCTCATAGCA
1 CATAAATCA-CTACATACTTAGCCCATAGTGTATATGACTATCTCAACACATACATCTCATAGCA
736167 TACATTTCATAACCT
65 TACATTTCATAACCT
* *
736182 CATAAATCACATACATACTTAGCCCATAGTGTATATGACTATCTCAACACATATATCTCATGGCA
1 CATAAATCAC-TACATACTTAGCCCATAGTGTATATGACTATCTCAACACATACATCTCATAGCA
* *
736247 TGCATTTCATAGCCT
65 TACATTTCATAACCT
* * * * * * * *
736262 CATAAATAACTCACATGCTCAGCCTATAGTGTATATAACTATCT-AATACATACATCCCATGGCA
1 CATAAATCACT-ACATACTTAGCCCATAGTGTATATGACTATCTCAACACATACATCTCATAGCA
736326 T
65 T
736327 GCATGTTACA
Statistics
Matches: 128, Mismatches: 15, Indels: 5
0.86 0.10 0.03
Matches are distributed among these distances:
79 20 0.16
80 108 0.84
ACGTcount: A:0.35, C:0.25, G:0.08, T:0.31
Consensus pattern (79 bp):
CATAAATCACTACATACTTAGCCCATAGTGTATATGACTATCTCAACACATACATCTCATAGCAT
ACATTTCATAACCT
Found at i:741649 original size:29 final size:28
Alignment explanation
Indices: 741613--741757 Score: 121
Period size: 29 Copynumber: 5.0 Consensus size: 28
741603 TTAACATGTA
*
741613 TGTCTTAATTTAGACAAGAAAACATGTT
1 TGTCTTAATTTAGACAAGAAAACATATT
*
741641 TGGTCTTAATTTAGACAAGAAAATATATT
1 T-GTCTTAATTTAGACAAGAAAACATATT
** * * * *
741670 TACCCTAATTTAAGATAAGAAAAGTATTTTT
1 TGTCTTAATTT-AGACAAGAAAA-CA-TATT
* * *
741701 TTTCTTAATCTAGAAAAGAAAACATATT
1 TGTCTTAATTTAGACAAGAAAACATATT
* *
741729 TGTCTCAATTTAAACAAGATAAA-ATATT
1 TGTCTTAATTTAGACAAGA-AAACATATT
741757 T
1 T
741758 TTGTCTTTAT
Statistics
Matches: 93, Mismatches: 19, Indels: 10
0.76 0.16 0.08
Matches are distributed among these distances:
28 31 0.33
29 40 0.43
30 12 0.13
31 10 0.11
ACGTcount: A:0.43, C:0.10, G:0.10, T:0.37
Consensus pattern (28 bp):
TGTCTTAATTTAGACAAGAAAACATATT
Found at i:741739 original size:59 final size:59
Alignment explanation
Indices: 741644--741759 Score: 137
Period size: 59 Copynumber: 2.0 Consensus size: 59
741634 ACATGTTTGG
* * * * *
741644 TCTTAATTTAGACAAGAAAATATATTTACCCTAATTTAAGATAAGA-AAAGTATTTTTTT
1 TCTTAATCTAGAAAAGAAAACATATTTACCCTAATTTAA-ACAAGATAAAATATTTTTTT
**
741703 TCTTAATCTAGAAAAGAAAACATATTT-GTCTCAATTTAAACAAGATAAAATATTTTT
1 TCTTAATCTAGAAAAGAAAACATATTTACCCT-AATTTAAACAAGATAAAATATTTTT
741760 GTCTTTATTA
Statistics
Matches: 48, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
58 7 0.15
59 41 0.85
ACGTcount: A:0.44, C:0.09, G:0.08, T:0.39
Consensus pattern (59 bp):
TCTTAATCTAGAAAAGAAAACATATTTACCCTAATTTAAACAAGATAAAATATTTTTTT
Found at i:741921 original size:17 final size:17
Alignment explanation
Indices: 741899--741932 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
741889 ATAATAATAA
741899 AATAA-GAGTTATTATTT
1 AATAAGGAG-TATTATTT
741916 AATAAGGAGTATTATTT
1 AATAAGGAGTATTATTT
741933 TATCAAGAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 13 0.81
18 3 0.19
ACGTcount: A:0.41, C:0.00, G:0.15, T:0.44
Consensus pattern (17 bp):
AATAAGGAGTATTATTT
Found at i:745840 original size:28 final size:28
Alignment explanation
Indices: 745770--745867 Score: 72
Period size: 28 Copynumber: 3.5 Consensus size: 28
745760 GTCATTAAAG
*
745770 CCATGGGTTTGTGGTGAACCCAGAAAAA
1 CCATGGGTTTGTGGTAAACCCAGAAAAA
* ** *
745798 CCATGGCTTCATGGTAAACTCA-AAAACA
1 CCATGGGTTTGTGGTAAACCCAGAAAA-A
* * * * *
745826 CTATGGGTTTGTGGTGAGCCTAAAAAAA
1 CCATGGGTTTGTGGTAAACCCAGAAAAA
* *
745854 TCATGAGTTTGTGG
1 CCATGGGTTTGTGG
745868 AGAACCTGTC
Statistics
Matches: 52, Mismatches: 16, Indels: 4
0.72 0.22 0.06
Matches are distributed among these distances:
27 4 0.08
28 44 0.85
29 4 0.08
ACGTcount: A:0.32, C:0.16, G:0.26, T:0.27
Consensus pattern (28 bp):
CCATGGGTTTGTGGTAAACCCAGAAAAA
Found at i:750398 original size:20 final size:19
Alignment explanation
Indices: 750364--750401 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
750354 TCGATGCATG
*
750364 CTAGGAATTTATCGATACC
1 CTAGGAATGTATCGATACC
750383 CTAGGTAATGTATCGATAC
1 CTAGG-AATGTATCGATAC
750402 ATTTCACATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Consensus pattern (19 bp):
CTAGGAATGTATCGATACC
Found at i:763950 original size:20 final size:20
Alignment explanation
Indices: 763914--763956 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
763904 GTACCATACC
* *
763914 TATTGATACATTATTGAATG
1 TATTGATAAATTATTGAAAG
763934 TATTGATAAATGT-TTGAAAG
1 TATTGATAAAT-TATTGAAAG
763954 TAT
1 TAT
763957 CAATACATTG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 19 0.95
21 1 0.05
ACGTcount: A:0.37, C:0.02, G:0.16, T:0.44
Consensus pattern (20 bp):
TATTGATAAATTATTGAAAG
Found at i:769266 original size:39 final size:34
Alignment explanation
Indices: 769193--769261 Score: 138
Period size: 34 Copynumber: 2.0 Consensus size: 34
769183 GTTATTTAGG
769193 TAAAGTGATATGATCATATACTTTTTTTTTTAAT
1 TAAAGTGATATGATCATATACTTTTTTTTTTAAT
769227 TAAAGTGATATGATCATATACTTTTTTTTTTAAT
1 TAAAGTGATATGATCATATACTTTTTTTTTTAAT
769261 T
1 T
769262 TAATTCTGTA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.32, C:0.06, G:0.09, T:0.54
Consensus pattern (34 bp):
TAAAGTGATATGATCATATACTTTTTTTTTTAAT
Found at i:779619 original size:16 final size:16
Alignment explanation
Indices: 779598--779629 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
779588 ATAAAAATGT
779598 CAAAAAAACCAAAATC
1 CAAAAAAACCAAAATC
*
779614 CAAAAAAATCAAAATC
1 CAAAAAAACCAAAATC
779630 TAAATTNNNN
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.69, C:0.22, G:0.00, T:0.09
Consensus pattern (16 bp):
CAAAAAAACCAAAATC
Found at i:780457 original size:15 final size:15
Alignment explanation
Indices: 780434--780471 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
780424 CATATAGTTA
780434 TTTTTTTAA-TTATT
1 TTTTTTTAAGTTATT
780448 TTTTTATTAAGTTATT
1 TTTTT-TTAAGTTATT
*
780464 TTATTTTA
1 TTTTTTTA
780472 TGCTAATTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
14 5 0.24
15 7 0.33
16 9 0.43
ACGTcount: A:0.24, C:0.00, G:0.03, T:0.74
Consensus pattern (15 bp):
TTTTTTTAAGTTATT
Found at i:785582 original size:15 final size:16
Alignment explanation
Indices: 785560--785595 Score: 58
Period size: 15 Copynumber: 2.4 Consensus size: 16
785550 GTTAATTAGT
785560 TTAG-TTTTAGTTG-A
1 TTAGTTTTTAGTTGAA
785574 TTAGTTTTTAGTTGAA
1 TTAGTTTTTAGTTGAA
785590 TTAGTT
1 TTAGTT
785596 ATTAAATATT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
14 4 0.20
15 9 0.45
16 7 0.35
ACGTcount: A:0.22, C:0.00, G:0.19, T:0.58
Consensus pattern (16 bp):
TTAGTTTTTAGTTGAA
Found at i:789916 original size:4 final size:4
Alignment explanation
Indices: 789907--789934 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
789897 GAAAAAAATT
789907 TTAA TTAA TTAA TTAA TTAA TTAA TTAA
1 TTAA TTAA TTAA TTAA TTAA TTAA TTAA
789935 GGTTTGAATT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (4 bp):
TTAA
Found at i:806214 original size:35 final size:35
Alignment explanation
Indices: 806158--806316 Score: 174
Period size: 35 Copynumber: 4.5 Consensus size: 35
806148 NNNNNNNTTT
* * *
806158 AATTAAGTCATTGAGCCTAATTAATTAAATTAAAC
1 AATTAAGTTATTGGGCCTAATTGATTAAATTAAAC
* ***
806193 AATTAAGTTATTGGGCTTAATTGATTAAATTTCTTC
1 AATTAAGTTATTGGGCCTAATTGATTAAA-TTAAAC
***
806229 AATTAAGTTTATTGGGCCTAATTGATTAAATTGTTC
1 AATTAAG-TTATTGGGCCTAATTGATTAAATTAAAC
* * *
806265 AATTAAGTTATTGGGCGTAATTGACTAAATTAAAT
1 AATTAAGTTATTGGGCCTAATTGATTAAATTAAAC
806300 AATTAAGTTAATTGGGC
1 AATTAAGTT-ATTGGGC
806317 TTCTTAAGGA
Statistics
Matches: 106, Mismatches: 15, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
35 56 0.53
36 29 0.27
37 21 0.20
ACGTcount: A:0.36, C:0.08, G:0.15, T:0.40
Consensus pattern (35 bp):
AATTAAGTTATTGGGCCTAATTGATTAAATTAAAC
Found at i:806274 original size:72 final size:71
Alignment explanation
Indices: 806158--806295 Score: 195
Period size: 72 Copynumber: 1.9 Consensus size: 71
806148 NNNNNNNTTT
* *
806158 AATTAAGTCATTGAGCCTAATTAATTAAATTAAACAATTAAGTTATTGGGCTTAATTGATTAAAT
1 AATTAAGTCATTGAGCCTAATTAATTAAATTAAACAATTAAGTTATTGGGCGTAATTGACTAAAT
806223 TTCTTC
66 TTCTTC
* * * ***
806229 AATTAAGTTTATTGGGCCTAATTGATTAAATTGTTCAATTAAGTTATTGGGCGTAATTGACTAAA
1 AATTAAG-TCATTGAGCCTAATTAATTAAATTAAACAATTAAGTTATTGGGCGTAATTGACTAAA
806294 TT
65 TT
806296 AAATAATTAA
Statistics
Matches: 58, Mismatches: 8, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
71 7 0.12
72 51 0.88
ACGTcount: A:0.36, C:0.09, G:0.14, T:0.41
Consensus pattern (71 bp):
AATTAAGTCATTGAGCCTAATTAATTAAATTAAACAATTAAGTTATTGGGCGTAATTGACTAAAT
TTCTTC
Found at i:816955 original size:35 final size:35
Alignment explanation
Indices: 816893--817048 Score: 152
Period size: 35 Copynumber: 4.4 Consensus size: 35
816883 TAAATTGTTT
* * * *
816893 AATTAAGTTATT-AGGCCAAATTAATTAACTTCAAC
1 AATTAAGTTATTGA-GCCTAATTGATTAAATTGAAC
* ***
816928 AATTAAGTTATTGAGCTTAATTGATTAAATTTGTTT
1 AATTAAGTTATTGAGCCTAATTGATTAAA-TTGAAC
* ***
816964 AATTAAGTTATTGGGCCTAATTGATTAAATTGTTT
1 AATTAAGTTATTGAGCCTAATTGATTAAATTGAAC
* *
816999 AATTAAGTTATTGGGCCTAATTGATTAAATTAAAC
1 AATTAAGTTATTGAGCCTAATTGATTAAATTGAAC
817034 AATTAAGTTAATTGA
1 AATTAAGTT-ATTGA
817049 ACTTCTTAAG
Statistics
Matches: 103, Mismatches: 15, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
35 69 0.67
36 34 0.33
ACGTcount: A:0.38, C:0.07, G:0.13, T:0.42
Consensus pattern (35 bp):
AATTAAGTTATTGAGCCTAATTGATTAAATTGAAC
Found at i:816966 original size:71 final size:71
Alignment explanation
Indices: 816876--817029 Score: 202
Period size: 71 Copynumber: 2.2 Consensus size: 71
816866 AGTTGTGCCC
* *
816876 AATTCATTAAA-TTGTTTAATTAAGTTATTAGGCCAAATTAATTAACTTCAACAATTAAGTTATT
1 AATTGATTAAATTTGTTTAATTAAGTTATTAGGCCAAATTAATTAAATTCAACAATTAAGTTATT
*
816940 GAGCTT
66 GAGCCT
* * * ****
816946 AATTGATTAAATTTGTTTAATTAAGTTATTGGGCCTAATTGATTAAATTGTTTAATTAAGTTATT
1 AATTGATTAAATTTGTTTAATTAAGTTATTAGGCCAAATTAATTAAATTCAACAATTAAGTTATT
*
817011 GGGCCT
66 GAGCCT
817017 AATTGATTAAATT
1 AATTGATTAAATT
817030 AAACAATTAA
Statistics
Matches: 72, Mismatches: 11, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
70 10 0.14
71 62 0.86
ACGTcount: A:0.36, C:0.07, G:0.13, T:0.44
Consensus pattern (71 bp):
AATTGATTAAATTTGTTTAATTAAGTTATTAGGCCAAATTAATTAAATTCAACAATTAAGTTATT
GAGCCT
Found at i:816974 original size:36 final size:36
Alignment explanation
Indices: 816845--817029 Score: 202
Period size: 35 Copynumber: 5.3 Consensus size: 36
816835 TCTCAAGCAC
* * *
816845 TTGATTAAAATTGTTTAATTAAG---TTGTGCCCAA
1 TTGATTAAATTTGTTTAATTAAGTTATTGGGCCTAA
* * *
816878 TTCATTAAA-TTGTTTAATTAAGTTATTAGGCCAAA
1 TTGATTAAATTTGTTTAATTAAGTTATTGGGCCTAA
* * **** * *
816913 TTAATT-AACTTCAACAATTAAGTTATTGAGCTTAA
1 TTGATTAAATTTGTTTAATTAAGTTATTGGGCCTAA
816948 TTGATTAAATTTGTTTAATTAAGTTATTGGGCCTAA
1 TTGATTAAATTTGTTTAATTAAGTTATTGGGCCTAA
816984 TTGATTAAA-TTGTTTAATTAAGTTATTGGGCCTAA
1 TTGATTAAATTTGTTTAATTAAGTTATTGGGCCTAA
817019 TTGATTAAATT
1 TTGATTAAATT
817030 AAACAATTAA
Statistics
Matches: 125, Mismatches: 21, Indels: 9
0.81 0.14 0.06
Matches are distributed among these distances:
32 13 0.10
33 8 0.06
34 2 0.02
35 70 0.56
36 32 0.26
ACGTcount: A:0.35, C:0.08, G:0.14, T:0.44
Consensus pattern (36 bp):
TTGATTAAATTTGTTTAATTAAGTTATTGGGCCTAA
Found at i:816984 original size:18 final size:18
Alignment explanation
Indices: 816963--817020 Score: 50
Period size: 18 Copynumber: 3.3 Consensus size: 18
816953 TAAATTTGTT
816963 TAATTAAGTTATTGGGCC
1 TAATTAAGTTATTGGGCC
* **
816981 TAATTGA-TTAAATT--GTT
1 TAATTAAGTT--ATTGGGCC
816998 TAATTAAGTTATTGGGCC
1 TAATTAAGTTATTGGGCC
817016 TAATT
1 TAATT
817021 GATTAAATTA
Statistics
Matches: 29, Mismatches: 6, Indels: 10
0.64 0.13 0.22
Matches are distributed among these distances:
16 3 0.10
17 9 0.31
18 14 0.48
19 3 0.10
ACGTcount: A:0.31, C:0.07, G:0.17, T:0.45
Consensus pattern (18 bp):
TAATTAAGTTATTGGGCC
Found at i:817035 original size:106 final size:104
Alignment explanation
Indices: 816845--817048 Score: 293
Period size: 106 Copynumber: 1.9 Consensus size: 104
816835 TCTCAAGCAC
*
816845 TTGATTAAAATTGTTTAATTAAGTTGTGCCCAATTCATTAAATTGTTTAATTAAGTTATTAGGCC
1 TTGATTAAAATTGTTTAATTAAGTTGGGCCCAATTCATTAAATTGTTTAATTAAGTTATTAGGCC
* *
816910 AAATTAATTAACTTCAACAATTAAGTT-ATTGAGCTTAA
66 AAATTAATTAAATTAAACAATTAAGTTAATTGAGCTTAA
* * * *
816948 TTGATTAAATTTGTTTAATTAAGTTATTGGGCCTAATTGATTAAATTGTTTAATTAAGTTATTGG
1 TTGATTAAAATTGTTTAATTAAG---TTGGGCCCAATTCATTAAATTGTTTAATTAAGTTATTAG
* *
817013 GCCTAATTGATTAAATTAAACAATTAAGTTAATTGA
63 GCCAAATTAATTAAATTAAACAATTAAGTTAATTGA
817049 ACTTCTTAAG
Statistics
Matches: 88, Mismatches: 9, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
103 22 0.25
106 61 0.69
107 5 0.06
ACGTcount: A:0.36, C:0.07, G:0.13, T:0.43
Consensus pattern (104 bp):
TTGATTAAAATTGTTTAATTAAGTTGGGCCCAATTCATTAAATTGTTTAATTAAGTTATTAGGCC
AAATTAATTAAATTAAACAATTAAGTTAATTGAGCTTAA
Found at i:826505 original size:35 final size:35
Alignment explanation
Indices: 826459--826606 Score: 161
Period size: 35 Copynumber: 4.2 Consensus size: 35
826449 TCCTTAAGAA
* *
826459 GCCCAATTAACTTAATTATTTAATTTAATTAATTAG
1 GCCCAA-TAACTTAATTAATTAATTTAATCAATTAG
** *
826495 GCCCAATAACTTAATTAAACAATTTAATCAATTGG
1 GCCCAATAACTTAATTAATTAATTTAATCAATTAG
**
826530 GCCCAATAACTTAATTAAACAAATTTAATCAATTAG
1 GCCCAATAACTTAATT-AATTAATTTAATCAATTAG
** ** * *
826566 GCTTAATAACTTAATTGTTTAAGTTAATTAATTAG
1 GCCCAATAACTTAATTAATTAATTTAATCAATTAG
826601 GCCCAA
1 GCCCAA
826607 NNNNNNNNNN
Statistics
Matches: 93, Mismatches: 18, Indels: 3
0.82 0.16 0.03
Matches are distributed among these distances:
35 57 0.61
36 36 0.39
ACGTcount: A:0.41, C:0.14, G:0.08, T:0.36
Consensus pattern (35 bp):
GCCCAATAACTTAATTAATTAATTTAATCAATTAG
Found at i:826562 original size:36 final size:35
Alignment explanation
Indices: 826459--826581 Score: 165
Period size: 35 Copynumber: 3.5 Consensus size: 35
826449 TCCTTAAGAA
*** *
826459 GCCCAATTAACTTAATTATTTAATTTAATTAATTAG
1 GCCCAA-TAACTTAATTAAACAATTTAATCAATTAG
*
826495 GCCCAATAACTTAATTAAACAATTTAATCAATTGG
1 GCCCAATAACTTAATTAAACAATTTAATCAATTAG
826530 GCCCAATAACTTAATTAAACAAATTTAATCAATTAG
1 GCCCAATAACTTAATTAAAC-AATTTAATCAATTAG
**
826566 GCTTAATAACTTAATT
1 GCCCAATAACTTAATT
826582 GTTTAAGTTA
Statistics
Matches: 78, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
35 44 0.56
36 34 0.44
ACGTcount: A:0.42, C:0.15, G:0.07, T:0.37
Consensus pattern (35 bp):
GCCCAATAACTTAATTAAACAATTTAATCAATTAG
Found at i:831203 original size:21 final size:20
Alignment explanation
Indices: 831178--831216 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
831168 TAATTTAAAA
831178 TAAAACAACCTAAACTTTAAC
1 TAAAACAACCTAAA-TTTAAC
* *
831199 TAAAATAACTTAAATTTA
1 TAAAACAACCTAAATTTA
831217 TCACTTAATA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 4 0.25
21 12 0.75
ACGTcount: A:0.54, C:0.15, G:0.00, T:0.31
Consensus pattern (20 bp):
TAAAACAACCTAAATTTAAC
Found at i:833646 original size:14 final size:15
Alignment explanation
Indices: 833611--833661 Score: 59
Period size: 15 Copynumber: 3.4 Consensus size: 15
833601 TAGATTTTTA
*
833611 ATTAGTATTAATTAG
1 ATTAGTTTTAATTAG
*
833626 TTTAGTTTTAATT-G
1 ATTAGTTTTAATTAG
*
833640 ATTAGTTTTTAATTAA
1 ATTAG-TTTTAATTAG
833656 ATTAGT
1 ATTAGT
833662 AATTAAATTT
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
14 5 0.17
15 20 0.67
16 5 0.17
ACGTcount: A:0.33, C:0.00, G:0.12, T:0.55
Consensus pattern (15 bp):
ATTAGTTTTAATTAG
Found at i:835678 original size:30 final size:30
Alignment explanation
Indices: 835633--835701 Score: 93
Period size: 30 Copynumber: 2.3 Consensus size: 30
835623 CAAACATGTG
*
835633 TTTAATGGCTGGATTCTTGTATGATTCATC
1 TTTAATGGCTGGATTCTTGTATGAGTCATC
* * *
835663 TTTACTGGTTGGATTCTTGTGTGAGTCATC
1 TTTAATGGCTGGATTCTTGTATGAGTCATC
*
835693 TATAATGGC
1 TTTAATGGC
835702 ACCAAGATCT
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.19, C:0.13, G:0.23, T:0.45
Consensus pattern (30 bp):
TTTAATGGCTGGATTCTTGTATGAGTCATC
Found at i:836558 original size:20 final size:19
Alignment explanation
Indices: 836535--836583 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 19
836525 CAGTGAGTTA
836535 TTTTAATTTTA-TGTTATTT
1 TTTTAATTTTATTGTTA-TT
*
836554 CTTTTAATTTGATTGTTATT
1 -TTTTAATTTTATTGTTATT
836574 TTTTAATTTT
1 TTTTAATTTT
836584 NNNNNNNNNN
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
19 9 0.35
20 12 0.46
21 5 0.19
ACGTcount: A:0.20, C:0.02, G:0.06, T:0.71
Consensus pattern (19 bp):
TTTTAATTTTATTGTTATT
Found at i:838933 original size:15 final size:14
Alignment explanation
Indices: 838909--838954 Score: 56
Period size: 15 Copynumber: 3.1 Consensus size: 14
838899 AGATTTTTTA
*
838909 TTAGTATTAATTAGT
1 TTAGTTTTAATT-GT
*
838924 TTAGTTTTAATTGA
1 TTAGTTTTAATTGT
838938 TTAGTTTTTAATTGT
1 TTAG-TTTTAATTGT
838953 TT
1 TT
838955 GAATAAAACT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
14 5 0.19
15 22 0.81
ACGTcount: A:0.26, C:0.00, G:0.13, T:0.61
Consensus pattern (14 bp):
TTAGTTTTAATTGT
Found at i:839243 original size:39 final size:34
Alignment explanation
Indices: 839165--839231 Score: 107
Period size: 34 Copynumber: 2.0 Consensus size: 34
839155 TTTGCTGTTA
*
839165 ATTGATATGATGAGCTTGAAAATGATTTTATCTT
1 ATTGATATGATAAGCTTGAAAATGATTTTATCTT
* *
839199 ATTGATATGATAAGCTTTAAAATGATTCTATCT
1 ATTGATATGATAAGCTTGAAAATGATTTTATCT
839232 CTCATAGTTG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
34 30 1.00
ACGTcount: A:0.34, C:0.07, G:0.15, T:0.43
Consensus pattern (34 bp):
ATTGATATGATAAGCTTGAAAATGATTTTATCTT
Found at i:863821 original size:21 final size:21
Alignment explanation
Indices: 863795--863844 Score: 91
Period size: 21 Copynumber: 2.4 Consensus size: 21
863785 ATGATTTATG
863795 GATAGATGTTCTAAGTCTATC
1 GATAGATGTTCTAAGTCTATC
*
863816 GATAGATGTTCTAAGTTTATC
1 GATAGATGTTCTAAGTCTATC
863837 GATAGATG
1 GATAGATG
863845 AAAGTTAGGA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.30, C:0.10, G:0.22, T:0.38
Consensus pattern (21 bp):
GATAGATGTTCTAAGTCTATC
Found at i:865170 original size:37 final size:37
Alignment explanation
Indices: 865095--865170 Score: 98
Period size: 37 Copynumber: 2.1 Consensus size: 37
865085 CCTCTACTAG
* * *
865095 TTGCTTCGACACTAAGCGTAATTTGAACTTCCGCCAA
1 TTGCTTCAACACTAAGCATAATTTGAACTTCCACCAA
* * *
865132 TTGCTTCAACACTAAGCATGATTTGAACTTTCATCAA
1 TTGCTTCAACACTAAGCATAATTTGAACTTCCACCAA
865169 TT
1 TT
865171 ACTTTGATAC
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
37 33 1.00
ACGTcount: A:0.29, C:0.24, G:0.13, T:0.34
Consensus pattern (37 bp):
TTGCTTCAACACTAAGCATAATTTGAACTTCCACCAA
Found at i:877071 original size:18 final size:18
Alignment explanation
Indices: 877036--877074 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
877026 ACGAAAATTA
* *
877036 CAATTAGAATCATAAAGT
1 CAATTAGAATAACAAAGT
*
877054 CAATTAGAATAACCAAGT
1 CAATTAGAATAACAAAGT
877072 CAA
1 CAA
877075 CCAAATCATA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.51, C:0.15, G:0.10, T:0.23
Consensus pattern (18 bp):
CAATTAGAATAACAAAGT
Found at i:887083 original size:21 final size:21
Alignment explanation
Indices: 887050--887093 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 21
887040 AAGTGACTAA
887050 TTTAAGTTATTTTGGTTAAAT
1 TTTAAGTTATTTTGGTTAAAT
* * * *
887071 TTTATGTTGTTTTGTTTTAAT
1 TTTAAGTTATTTTGGTTAAAT
887092 TT
1 TT
887094 ACTTTAAGAG
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.20, C:0.00, G:0.14, T:0.66
Consensus pattern (21 bp):
TTTAAGTTATTTTGGTTAAAT
Found at i:919855 original size:128 final size:129
Alignment explanation
Indices: 919617--919874 Score: 322
Period size: 128 Copynumber: 2.0 Consensus size: 129
919607 AAATTATATG
* *
919617 ACTTTGGCAACTTAAACCTAGCCAAGACTAATGAAATCAATTAGTTATTAGGCAAGTCATGAATA
1 ACTTTGGCAACTTAAACCTAGCCAAGACTAACGAAATCAATTAATTATTAGGCAAGTCATGAATA
* * ** *
919682 TTTTTTAGGCATTGCGTCACATGATACTAGGGTGTGTGACTGGATATTAGGCATTGCATGACTA
66 TTTTTTAAGCATTGCGTCACATGATACTAAGGTGCATGACTGGATATTAGACATTGCATGACTA
* * * * * * **
919746 ACTTTGGCAACTTAGACCTAGCTAGGAGTAGCGAAATCAATTAATTA-TAGGCAATTTTTGAATA
1 ACTTTGGCAACTTAAACCTAGCCAAGACTAACGAAATCAATTAATTATTAGGCAAGTCATGAATA
* ** *
919810 TTTTTTAAGCATTGTGTCAC-TGGATTTTAAGGTGCATGATTGGATATTAGACATTGCATGACTA
66 TTTTTTAAGCATTGCGTCACAT-GATACTAAGGTGCATGACTGGATATTAGACATTGCATGACTA
919874 A
1 A
919875 TTATTAGGAA
Statistics
Matches: 109, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
127 1 0.01
128 68 0.62
129 40 0.37
ACGTcount: A:0.32, C:0.14, G:0.21, T:0.34
Consensus pattern (129 bp):
ACTTTGGCAACTTAAACCTAGCCAAGACTAACGAAATCAATTAATTATTAGGCAAGTCATGAATA
TTTTTTAAGCATTGCGTCACATGATACTAAGGTGCATGACTGGATATTAGACATTGCATGACTA
Found at i:920914 original size:22 final size:22
Alignment explanation
Indices: 920889--920931 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
920879 ACTTTACAAG
*
920889 AATGGATATTAGGCCTTGTGTA
1 AATGGATATTAGGCATTGTGTA
920911 AATGGATATTAGGCATTGTGT
1 AATGGATATTAGGCATTGTGT
920932 GTCTAATTGT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.28, C:0.07, G:0.28, T:0.37
Consensus pattern (22 bp):
AATGGATATTAGGCATTGTGTA
Found at i:929732 original size:26 final size:26
Alignment explanation
Indices: 929654--929733 Score: 115
Period size: 26 Copynumber: 3.0 Consensus size: 26
929644 TGCCTTACTC
*
929654 TTTGTTAAATGATACAAAAAAGAATAC
1 TTTG-TAAATGATACAAAAAAGAATAA
*
929681 TTTGTAAATGATACAACAAAGAATAA
1 TTTGTAAATGATACAAAAAAGAATAA
* *
929707 TTTGTAAATGATGCAATAAAGAATAA
1 TTTGTAAATGATACAAAAAAGAATAA
929733 T
1 T
929734 GTAGAGATGA
Statistics
Matches: 49, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
26 45 0.92
27 4 0.08
ACGTcount: A:0.51, C:0.06, G:0.12, T:0.30
Consensus pattern (26 bp):
TTTGTAAATGATACAAAAAAGAATAA
Found at i:929743 original size:26 final size:25
Alignment explanation
Indices: 929659--929747 Score: 99
Period size: 26 Copynumber: 3.4 Consensus size: 25
929649 TACTCTTTGT
* *
929659 TAAATGATACAAAAAAGAATACTTTG
1 TAAATGATACAACAAAGAATA-ATTG
929685 TAAATGATACAACAAAGAATAATTTG
1 TAAATGATACAACAAAGAATAA-TTG
* *
929711 TAAATGATGCAATAAAGAATAA-TG
1 TAAATGATACAACAAAGAATAATTG
929735 TAGAGATGATACA
1 TA-A-ATGATACA
929748 CAACAATGTT
Statistics
Matches: 55, Mismatches: 5, Indels: 6
0.83 0.08 0.09
Matches are distributed among these distances:
24 4 0.07
25 1 0.02
26 50 0.91
ACGTcount: A:0.53, C:0.07, G:0.15, T:0.26
Consensus pattern (25 bp):
TAAATGATACAACAAAGAATAATTG
Found at i:933931 original size:23 final size:23
Alignment explanation
Indices: 933905--933965 Score: 63
Period size: 23 Copynumber: 2.7 Consensus size: 23
933895 TGTGAACAAC
933905 TCATGCAATGACCTAACAA-TCAA
1 TCATGCAATGACCTAACAACT-AA
* * * *
933928 TCATGCAAAGACATATCAACTAG
1 TCATGCAATGACCTAACAACTAA
933951 TCATGCAATG-CCTAA
1 TCATGCAATGACCTAA
933966 ACCCTAAACG
Statistics
Matches: 30, Mismatches: 7, Indels: 3
0.75 0.17 0.08
Matches are distributed among these distances:
22 3 0.10
23 26 0.87
24 1 0.03
ACGTcount: A:0.41, C:0.25, G:0.11, T:0.23
Consensus pattern (23 bp):
TCATGCAATGACCTAACAACTAA
Found at i:955322 original size:75 final size:77
Alignment explanation
Indices: 955226--955390 Score: 237
Period size: 75 Copynumber: 2.2 Consensus size: 77
955216 ACGAATTTCT
* *
955226 CAAATTAAAATACTATCCTTAATTTTAAGAATTTCTTTTAGAGTAGGAAGC-AA-TTCCTATTTT
1 CAAATTAAAATACTATCCTTAATTTTAAGAATTGCTTTTAAAGTAGGAA-CTAATTTCCTATTTT
955289 -TTATGAATCACC
65 GTTATGAATCACC
* * * *
955301 CAAATTAAAATTCTATTCTTAATTTTAGGAATTGCTTTTAAAGTAGGAACTAATTTCTTATTTTG
1 CAAATTAAAATACTATCCTTAATTTTAAGAATTGCTTTTAAAGTAGGAACTAATTTCCTATTTTG
955366 TTATGAATCACC
66 TTATGAATCACC
955378 CAAAATTAAAATA
1 C-AAATTAAAATA
955391 GATAGTATTT
Statistics
Matches: 79, Mismatches: 7, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
74 1 0.01
75 46 0.58
76 9 0.11
77 13 0.16
78 10 0.13
ACGTcount: A:0.38, C:0.13, G:0.09, T:0.41
Consensus pattern (77 bp):
CAAATTAAAATACTATCCTTAATTTTAAGAATTGCTTTTAAAGTAGGAACTAATTTCCTATTTTG
TTATGAATCACC
Found at i:956458 original size:18 final size:18
Alignment explanation
Indices: 956435--956474 Score: 80
Period size: 18 Copynumber: 2.2 Consensus size: 18
956425 TTTAATTTGC
956435 TAACATAATATATTTATA
1 TAACATAATATATTTATA
956453 TAACATAATATATTTATA
1 TAACATAATATATTTATA
956471 TAAC
1 TAAC
956475 CAAAGTAAGC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.42
Consensus pattern (18 bp):
TAACATAATATATTTATA
Found at i:966207 original size:16 final size:16
Alignment explanation
Indices: 966173--966206 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
966163 GAAACCAAAA
*
966173 TTTAGATTTTGATTCT
1 TTTAGATTTTAATTCT
966189 TTTAGATTTTAATT-T
1 TTTAGATTTTAATTCT
966204 TTT
1 TTT
966207 TTGACATTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 4 0.24
16 13 0.76
ACGTcount: A:0.21, C:0.03, G:0.09, T:0.68
Consensus pattern (16 bp):
TTTAGATTTTAATTCT
Found at i:969534 original size:18 final size:17
Alignment explanation
Indices: 969513--969548 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
969503 TCAATACTCT
969513 CAATCTTCGAATGCTTCC
1 CAATCTTCGAATG-TTCC
*
969531 CAATCTTTGAATGTTCC
1 CAATCTTCGAATGTTCC
969548 C
1 C
969549 GAATGAATGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 5 0.29
18 12 0.71
ACGTcount: A:0.22, C:0.31, G:0.11, T:0.36
Consensus pattern (17 bp):
CAATCTTCGAATGTTCC
Found at i:971191 original size:28 final size:28
Alignment explanation
Indices: 971159--971212 Score: 81
Period size: 28 Copynumber: 1.9 Consensus size: 28
971149 TATAATTTTA
*
971159 GAAGATGCATATTGCAATAAAACTATTT
1 GAAGAAGCATATTGCAATAAAACTATTT
* *
971187 GAAGAAGTATATTGCAATAGAACTAT
1 GAAGAAGCATATTGCAATAAAACTAT
971213 NNNNNNNNNN
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.44, C:0.09, G:0.17, T:0.30
Consensus pattern (28 bp):
GAAGAAGCATATTGCAATAAAACTATTT
Found at i:972426 original size:36 final size:36
Alignment explanation
Indices: 972386--972510 Score: 137
Period size: 36 Copynumber: 3.4 Consensus size: 36
972376 ATCCTCGGAG
972386 GGTGCTCTTTATAATAGCACTTGTTGATCCTTGAGA
1 GGTGCTCTTTATAATAGCACTTGTTGATCCTTGAGA
* * *
972422 GGTGCTCTTTATACTAGCACACGATT-TATCATCCCT-AGA
1 GGTGCTCTTTATAATAG--CAC--TTGT-TGATCCTTGAGA
* *
972461 GGGTGCTCTTTATAATAACACTTGTTGATCCTTGGGA
1 -GGTGCTCTTTATAATAGCACTTGTTGATCCTTGAGA
972498 GGTGCTCTTTATA
1 GGTGCTCTTTATA
972511 CTAGACACAA
Statistics
Matches: 73, Mismatches: 8, Indels: 16
0.75 0.08 0.16
Matches are distributed among these distances:
36 37 0.51
37 3 0.04
38 6 0.08
39 4 0.05
40 23 0.32
ACGTcount: A:0.22, C:0.19, G:0.21, T:0.38
Consensus pattern (36 bp):
GGTGCTCTTTATAATAGCACTTGTTGATCCTTGAGA
Found at i:972486 original size:76 final size:76
Alignment explanation
Indices: 972360--972524 Score: 262
Period size: 76 Copynumber: 2.2 Consensus size: 76
972350 NNNNNNNNAA
* * *
972360 TAGCACACAATTTATTATCCTCGGAGGGTGCTCTTTATAATAGCACTTGTTGATCCTTGAGAGGT
1 TAGCACACAATTTATCATCCTCAGAGGGTGCTCTTTATAATAACACTTGTTGATCCTTGAGAGGT
972425 GCTCTTTATAC
66 GCTCTTTATAC
* *
972436 TAGCACACGATTTATCATCC-CTAGAGGGTGCTCTTTATAATAACACTTGTTGATCCTTGGGAGG
1 TAGCACACAATTTATCATCCTC-AGAGGGTGCTCTTTATAATAACACTTGTTGATCCTTGAGAGG
972500 TGCTCTTTATAC
65 TGCTCTTTATAC
972512 TAG-ACACAATTTA
1 TAGCACACAATTTA
972525 GAATCACCAT
Statistics
Matches: 82, Mismatches: 6, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
75 10 0.12
76 72 0.88
ACGTcount: A:0.25, C:0.20, G:0.19, T:0.36
Consensus pattern (76 bp):
TAGCACACAATTTATCATCCTCAGAGGGTGCTCTTTATAATAACACTTGTTGATCCTTGAGAGGT
GCTCTTTATAC
Found at i:979613 original size:49 final size:49
Alignment explanation
Indices: 979536--979670 Score: 218
Period size: 49 Copynumber: 2.8 Consensus size: 49
979526 NNNNNNNNTG
*
979536 ATCAAGATTAAGTCGTGAAGACCCTTGAAGGGAAGATCAAGTG-TCTGTC
1 ATCAAGATTAAGTCGTGAAGACCCTTGAAGCGAAGATCAAGTGTTC-GTC
* * *
979585 ATCAAGATTAAGTCGTGAGGACCTTTGAAGCGAAGATCAAGTGTTCGTG
1 ATCAAGATTAAGTCGTGAAGACCCTTGAAGCGAAGATCAAGTGTTCGTC
979634 ATCAAGATTAAGTCGTGAAGACCCTTGAAGCGAAGAT
1 ATCAAGATTAAGTCGTGAAGACCCTTGAAGCGAAGAT
979671 TAAACAAAGT
Statistics
Matches: 79, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
49 77 0.97
50 2 0.03
ACGTcount: A:0.33, C:0.16, G:0.27, T:0.24
Consensus pattern (49 bp):
ATCAAGATTAAGTCGTGAAGACCCTTGAAGCGAAGATCAAGTGTTCGTC
Found at i:995062 original size:21 final size:21
Alignment explanation
Indices: 995036--995078 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
995026 TTCGCTTCAA
995036 GGGTCTTCATGACTTGATCTT
1 GGGTCTTCATGACTTGATCTT
995057 GGGTCTTCATGACTTGATCTT
1 GGGTCTTCATGACTTGATCTT
995078 G
1 G
995079 ATCACGAACT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.14, C:0.19, G:0.26, T:0.42
Consensus pattern (21 bp):
GGGTCTTCATGACTTGATCTT
Found at i:997673 original size:18 final size:18
Alignment explanation
Indices: 997650--997685 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
997640 NNNNNCATTC
997650 GGAAGCATTCAAAGATTG
1 GGAAGCATTCAAAGATTG
*
997668 GGAAGCATTCGAAGATTG
1 GGAAGCATTCAAAGATTG
997686 AGAGTATTTC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.36, C:0.11, G:0.31, T:0.22
Consensus pattern (18 bp):
GGAAGCATTCAAAGATTG
Found at i:998882 original size:23 final size:23
Alignment explanation
Indices: 998824--998923 Score: 69
Period size: 25 Copynumber: 4.0 Consensus size: 23
998814 GTATTCCTTC
*
998824 TTTTTTATCTCATTTTTTTTTCTT
1 TTTTTTTTCTC-TTTTTTTTTCTT
*
998848 TTTCTGTCTTCTCTTTTTTCTTT-TT
1 TTT-T-TTTTCTCTTTTTT-TTTCTT
* *
998873 TTTTTTTTCTCTTTTCTATTATGTT
1 TTTTTTTTCTCTTTT-T-TTTTCTT
998898 TTTGTTTTGT-TCTATTTTTTTTCTT
1 TTT-TTTT-TCTCT-TTTTTTTTCTT
998923 T
1 T
998924 CCTTTTTGTT
Statistics
Matches: 61, Mismatches: 6, Indels: 17
0.73 0.07 0.20
Matches are distributed among these distances:
23 10 0.16
24 7 0.11
25 24 0.39
26 16 0.26
27 4 0.07
ACGTcount: A:0.05, C:0.13, G:0.04, T:0.78
Consensus pattern (23 bp):
TTTTTTTTCTCTTTTTTTTTCTT
Found at i:1001363 original size:17 final size:18
Alignment explanation
Indices: 1001322--1001363 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
1001312 ATTCATTCGA
* *
1001322 AAGCGTTCGAAGATTGGG
1 AAGCATTCGAAGATTGAG
1001340 AAGCATTCGAAGATTGAG
1 AAGCATTCGAAGATTGAG
1001358 -AGCATT
1 AAGCATT
1001364 TCAGAGATCA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 6 0.27
18 16 0.73
ACGTcount: A:0.33, C:0.12, G:0.31, T:0.24
Consensus pattern (18 bp):
AAGCATTCGAAGATTGAG
Found at i:1012511 original size:26 final size:23
Alignment explanation
Indices: 1012454--1012506 Score: 97
Period size: 23 Copynumber: 2.3 Consensus size: 23
1012444 CACTTGATAT
1012454 CTTGATCACGAACTTCGTCGTCG
1 CTTGATCACGAACTTCGTCGTCG
*
1012477 CTTGATCACGAGCTTCGTCGTCG
1 CTTGATCACGAACTTCGTCGTCG
1012500 CTTGATC
1 CTTGATC
1012507 TTCACTTCAG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.15, C:0.30, G:0.23, T:0.32
Consensus pattern (23 bp):
CTTGATCACGAACTTCGTCGTCG
Found at i:1013820 original size:34 final size:34
Alignment explanation
Indices: 1013777--1013844 Score: 118
Period size: 34 Copynumber: 2.0 Consensus size: 34
1013767 ATACGAAAGC
* *
1013777 TTGTCATACAGGTATTTATGCAGCAAAAAGAGTA
1 TTGTCATACAAGTATTTACGCAGCAAAAAGAGTA
1013811 TTGTCATACAAGTATTTACGCAGCAAAAAGAGTA
1 TTGTCATACAAGTATTTACGCAGCAAAAAGAGTA
1013845 AGCGACAACA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 32 1.00
ACGTcount: A:0.40, C:0.13, G:0.19, T:0.28
Consensus pattern (34 bp):
TTGTCATACAAGTATTTACGCAGCAAAAAGAGTA
Found at i:1031502 original size:23 final size:23
Alignment explanation
Indices: 1031475--1031527 Score: 79
Period size: 23 Copynumber: 2.3 Consensus size: 23
1031465 CTGAAGTGAA
** *
1031475 GATCAAGCGACGGCGAAGTTCTT
1 GATCAAGCGACAACGAAGTTCGT
1031498 GATCAAGCGACAACGAAGTTCGT
1 GATCAAGCGACAACGAAGTTCGT
1031521 GATCAAG
1 GATCAAG
1031528 ATATCAAGTG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.32, C:0.21, G:0.28, T:0.19
Consensus pattern (23 bp):
GATCAAGCGACAACGAAGTTCGT
Found at i:1034558 original size:3 final size:3
Alignment explanation
Indices: 1034550--1034577 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
1034540 AAAAATGATA
1034550 TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1034578 CTTGTTTAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:1042099 original size:23 final size:23
Alignment explanation
Indices: 1042068--1042119 Score: 59
Period size: 23 Copynumber: 2.3 Consensus size: 23
1042058 AAGAATAAGA
* **
1042068 GTGCAATGTATCAGTCTCTCAAT
1 GTGCCATGTATCAACCTCTCAAT
* *
1042091 GTGCCATGTGTCAACCTCTTAAT
1 GTGCCATGTATCAACCTCTCAAT
1042114 GTGCCA
1 GTGCCA
1042120 CATAGTAGCC
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.23, C:0.25, G:0.19, T:0.33
Consensus pattern (23 bp):
GTGCCATGTATCAACCTCTCAAT
Found at i:1043097 original size:144 final size:146
Alignment explanation
Indices: 1042859--1043121 Score: 424
Period size: 144 Copynumber: 1.8 Consensus size: 146
1042849 ACCATTACTG
* *
1042859 AAAAAATAAAAGACCAAATCATTATAATGTTACCAGAATAGTTAAAGACCAAAACCAAATCAAAA
1 AAAAAATAAAAAACCAAATCATTATAACGTTACCAGAATAGTTAAAGACCAAAACCAAATCAAAA
1042924 TCAAAGACCAAATCTTTATAATGTTGGTAGAACAATTAAAGA-C-AATCAAATTCAAGTAAAATT
66 TCAAAGACCAAATCTTTATAATGTTGGTAGAACAATTAAAGACCAAATCAAATTCAAGTAAAATT
1042987 TTGATTAACGTCGCTA
131 TTGATTAACGTCGCTA
* * **
1043003 AAAAAATAAAAAACCTAATCTTTATAACGTTGGCAGAATAGTTAAAGA-CAAAGACCAAATCAAA
1 AAAAAATAAAAAACCAAATCATTATAACGTTACCAGAATAGTTAAAGACCAAA-ACCAAATCAAA
* *
1043067 ATCAAAGACCAAATCTTTATAATGTTGGTAGAGCAGTTAAAGACCAAATCAAATT
65 ATCAAAGACCAAATCTTTATAATGTTGGTAGAACAATTAAAGACCAAATCAAATT
1043122 ATGGTAAAAG
Statistics
Matches: 108, Mismatches: 8, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
143 4 0.04
144 94 0.87
145 1 0.01
146 9 0.08
ACGTcount: A:0.50, C:0.14, G:0.11, T:0.24
Consensus pattern (146 bp):
AAAAAATAAAAAACCAAATCATTATAACGTTACCAGAATAGTTAAAGACCAAAACCAAATCAAAA
TCAAAGACCAAATCTTTATAATGTTGGTAGAACAATTAAAGACCAAATCAAATTCAAGTAAAATT
TTGATTAACGTCGCTA
Found at i:1043575 original size:60 final size:60
Alignment explanation
Indices: 1043482--1043603 Score: 244
Period size: 60 Copynumber: 2.0 Consensus size: 60
1043472 CTTTTTAAGA
1043482 TTTGAACCGGGCCTAGAAAGAATGAAAAATAGATCACAAAATTTTGGTAAAGTTTATAAC
1 TTTGAACCGGGCCTAGAAAGAATGAAAAATAGATCACAAAATTTTGGTAAAGTTTATAAC
1043542 TTTGAACCGGGCCTAGAAAGAATGAAAAATAGATCACAAAATTTTGGTAAAGTTTATAAC
1 TTTGAACCGGGCCTAGAAAGAATGAAAAATAGATCACAAAATTTTGGTAAAGTTTATAAC
1043602 TT
1 TT
1043604 ATATGAACTG
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
60 62 1.00
ACGTcount: A:0.43, C:0.11, G:0.18, T:0.28
Consensus pattern (60 bp):
TTTGAACCGGGCCTAGAAAGAATGAAAAATAGATCACAAAATTTTGGTAAAGTTTATAAC
Found at i:1050498 original size:155 final size:155
Alignment explanation
Indices: 1050216--1050525 Score: 539
Period size: 155 Copynumber: 2.0 Consensus size: 155
1050206 CTGAATGACA
* * *
1050216 CTAAAGTTGACTTCTAATTGGAAGATAGTTAAAGGTTAATGATGAAAAGTTAAACGCCAAATGAA
1 CTAAACTTGACTTCTAATTGGAAGATAGTTAAAGGTCAATGATGAAAAGTTAAACGCCAAAAGAA
*
1050281 AGAATGATTTAAAGAAGAATGAAATGAAAAATAAAAGAGGGTGGACAATGCACAAAGATTTATAG
66 AGAATGATTTAAAGAAGAATGAAATGAAAAATAAAAGAGGGTAGACAATGCACAAAGATTTATAG
1050346 TGGTTCGATCTTTTTGACCTACATC
131 TGGTTCGATCTTTTTGACCTACATC
* * *
1050371 CTAAACTTGACTTCTAATTGGAAGCTAGTTAAAGGTCAATGATGAGAAGTTAAATGCCAAAAGAA
1 CTAAACTTGACTTCTAATTGGAAGATAGTTAAAGGTCAATGATGAAAAGTTAAACGCCAAAAGAA
*
1050436 AGATTGATTTAAAGAAGAATGAAATGAAAAATAAAAGAGGGTAGACAATGCACAAAGATTTATAG
66 AGAATGATTTAAAGAAGAATGAAATGAAAAATAAAAGAGGGTAGACAATGCACAAAGATTTATAG
*
1050501 TGGTTTGATCTTTTTGACCTACATC
131 TGGTTCGATCTTTTTGACCTACATC
1050526 TACTACCTTA
Statistics
Matches: 146, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
155 146 1.00
ACGTcount: A:0.42, C:0.10, G:0.20, T:0.27
Consensus pattern (155 bp):
CTAAACTTGACTTCTAATTGGAAGATAGTTAAAGGTCAATGATGAAAAGTTAAACGCCAAAAGAA
AGAATGATTTAAAGAAGAATGAAATGAAAAATAAAAGAGGGTAGACAATGCACAAAGATTTATAG
TGGTTCGATCTTTTTGACCTACATC
Found at i:1051148 original size:73 final size:74
Alignment explanation
Indices: 1051049--1051197 Score: 176
Period size: 73 Copynumber: 2.0 Consensus size: 74
1051039 ATATTCAAAT
* * ** * * *
1051049 TCAAATTCTTAGACAGTGAGCTTTTAGCTGGTTAACCATT-CTTCTTAGTTGATTAAGTTTTTTT
1 TCAAATTCTTAGACAGTGAGCTTTTAGCTAGCTAA-CATTACTTCTTAGTCAATTAAGTCTTCTC
1051113 TGTCTCACAA
65 TGTCTCACAA
* * * *
1051123 TCAAATT-TTTGATAGTGAGTTTTTAGCTAGCTAACTTTACTTCTTAGTCAATTAAGTCTTCTCT
1 TCAAATTCTTAGACAGTGAGCTTTTAGCTAGCTAACATTACTTCTTAGTCAATTAAGTCTTCTCT
1051187 GTCTCACAA
66 GTCTCACAA
1051196 TC
1 TC
1051198 CGCTTTACCC
Statistics
Matches: 63, Mismatches: 11, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
72 3 0.05
73 53 0.84
74 7 0.11
ACGTcount: A:0.25, C:0.17, G:0.13, T:0.44
Consensus pattern (74 bp):
TCAAATTCTTAGACAGTGAGCTTTTAGCTAGCTAACATTACTTCTTAGTCAATTAAGTCTTCTCT
GTCTCACAA
Found at i:1055368 original size:74 final size:74
Alignment explanation
Indices: 1055278--1055476 Score: 249
Period size: 74 Copynumber: 2.7 Consensus size: 74
1055268 GGTTGGTTCA
* * * * *
1055278 AAGACATAGAAGACTTAGTTGATTAAGAAGTATGGTTAGTCAACTAAGAGCTCACT-GCTAGATA
1 AAGACAAAGAAGACTTAATCGATTAAGAAGTATGGCTAGTCAACTAAGAGCTCA-TGGCTAGAAA
* *
1055342 CTTCAAGTAT
65 ATTCAAGTAC
* *
1055352 AAGACAAAG-AGAACTTAATCGATTAAGAAGCATGACTAGTCAACTAAGAGCTCATGGCTAGAAA
1 AAGACAAAGAAG-ACTTAATCGATTAAGAAGTATGGCTAGTCAACTAAGAGCTCATGGCTAGAAA
*
1055416 ATTCAATTAC
65 ATTCAAGTAC
* * *
1055426 AAGACAGAGAAGACTTAATCGACTAAGAAGTATGGCTAGTCAATTAAGAGC
1 AAGACAAAGAAGACTTAATCGATTAAGAAGTATGGCTAGTCAACTAAGAGC
1055477 ACTTTGTCTA
Statistics
Matches: 107, Mismatches: 15, Indels: 6
0.84 0.12 0.05
Matches are distributed among these distances:
73 3 0.03
74 102 0.95
75 2 0.02
ACGTcount: A:0.42, C:0.15, G:0.20, T:0.24
Consensus pattern (74 bp):
AAGACAAAGAAGACTTAATCGATTAAGAAGTATGGCTAGTCAACTAAGAGCTCATGGCTAGAAAA
TTCAAGTAC
Found at i:1055932 original size:35 final size:35
Alignment explanation
Indices: 1055888--1055997 Score: 118
Period size: 35 Copynumber: 3.2 Consensus size: 35
1055878 TTAGATTTTG
* * *
1055888 GGTTTTGGTTAATCCCATGAAAAACCATTGTTAAA
1 GGTTGTGGTTGATCCCATGAAAAATCATTGTTAAA
* ** *
1055923 GGTTGTGGTTGAGCCTTTAAAAAATCATT-TT--A
1 GGTTGTGGTTGATCCCATGAAAAATCATTGTTAAA
* *
1055955 GGTTTTGGTTGATCCCAGGAAAAATCATTGTTAAA
1 GGTTGTGGTTGATCCCATGAAAAATCATTGTTAAA
1055990 GGTTGTGG
1 GGTTGTGG
1055998 CTGAGCTTGT
Statistics
Matches: 58, Mismatches: 14, Indels: 6
0.74 0.18 0.08
Matches are distributed among these distances:
32 24 0.41
33 2 0.03
34 2 0.03
35 30 0.52
ACGTcount: A:0.29, C:0.11, G:0.24, T:0.36
Consensus pattern (35 bp):
GGTTGTGGTTGATCCCATGAAAAATCATTGTTAAA
Found at i:1055978 original size:32 final size:32
Alignment explanation
Indices: 1055882--1055983 Score: 96
Period size: 32 Copynumber: 3.1 Consensus size: 32
1055872 GAAAAGTTAG
* * *
1055882 ATTTTGGGTTTTGGTTAATCCCATGAAAAACC
1 ATTTTAGGTTTTGGTTGATCCCATGAAAAATC
* * ** *
1055914 ATTGTTAAAGGTTGTGGTTGAGCCTTTAAAAAATC
1 ATT-TT--AGGTTTTGGTTGATCCCATGAAAAATC
*
1055949 ATTTTAGGTTTTGGTTGATCCCAGGAAAAATC
1 ATTTTAGGTTTTGGTTGATCCCATGAAAAATC
1055981 ATT
1 ATT
1055984 GTTAAAGGTT
Statistics
Matches: 53, Mismatches: 14, Indels: 6
0.73 0.19 0.08
Matches are distributed among these distances:
32 27 0.51
33 2 0.04
34 2 0.04
35 22 0.42
ACGTcount: A:0.29, C:0.12, G:0.21, T:0.38
Consensus pattern (32 bp):
ATTTTAGGTTTTGGTTGATCCCATGAAAAATC
Found at i:1063496 original size:15 final size:15
Alignment explanation
Indices: 1063478--1063519 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 15
1063468 AGCAAAACCC
*
1063478 AACAAGTAAAAAACA
1 AACAAGCAAAAAACA
*
1063493 AAC-AGCAAAAAATA
1 AACAAGCAAAAAACA
*
1063507 AAAAAGCAAAAAA
1 AACAAGCAAAAAA
1063520 TAAAGTCATA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
14 11 0.48
15 12 0.52
ACGTcount: A:0.76, C:0.12, G:0.07, T:0.05
Consensus pattern (15 bp):
AACAAGCAAAAAACA
Found at i:1064305 original size:17 final size:17
Alignment explanation
Indices: 1064273--1064352 Score: 55
Period size: 17 Copynumber: 4.9 Consensus size: 17
1064263 CAACAACAAC
1064273 AATAATAAAAATAAATA
1 AATAATAAAAATAAATA
*
1064290 AATAAATAATAA-AAATA
1 AAT-AATAAAAATAAATA
*
1064307 AAT--TAAAAA-AAA-G
1 AATAATAAAAATAAATA
*
1064320 AATAATAAAGAATATATA
1 AATAATAAA-AATAAATA
*
1064338 AA-AATCAAGAATAAA
1 AATAAT-AAAAATAAA
1064353 GTAATGAATA
Statistics
Matches: 49, Mismatches: 7, Indels: 14
0.70 0.10 0.20
Matches are distributed among these distances:
13 3 0.06
14 8 0.16
15 4 0.08
16 2 0.04
17 21 0.43
18 11 0.22
ACGTcount: A:0.74, C:0.01, G:0.04, T:0.21
Consensus pattern (17 bp):
AATAATAAAAATAAATA
Found at i:1064341 original size:27 final size:26
Alignment explanation
Indices: 1064273--1064351 Score: 72
Period size: 27 Copynumber: 3.1 Consensus size: 26
1064263 CAACAACAAC
* * *
1064273 AATAATAA-AAATAAATAAATA-AAT
1 AATAAAAATAAATAAAAAAAAAGAAT
*
1064297 AATAAAAATAAATTAAAAAAAAGAAT
1 AATAAAAATAAATAAAAAAAAAGAAT
* **
1064323 AATAAAGAATATATAAAAATCAAGAAT
1 AATAAA-AATAAATAAAAAAAAAGAAT
1064350 AA
1 AA
1064352 AGTAATGAAT
Statistics
Matches: 44, Mismatches: 8, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
24 7 0.16
25 10 0.23
26 9 0.20
27 18 0.41
ACGTcount: A:0.73, C:0.01, G:0.04, T:0.22
Consensus pattern (26 bp):
AATAAAAATAAATAAAAAAAAAGAAT
Found at i:1067693 original size:17 final size:19
Alignment explanation
Indices: 1067657--1067701 Score: 67
Period size: 18 Copynumber: 2.5 Consensus size: 19
1067647 NNNNNNNNNN
*
1067657 TTCAAAGATTGGGAAGCA-
1 TTCAAAGATTGAGAAGCAT
1067675 TTCAAAGATTGAG-AGCAT
1 TTCAAAGATTGAGAAGCAT
1067693 TTCAAAGAT
1 TTCAAAGAT
1067702 CAAAAAGAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
17 4 0.16
18 21 0.84
ACGTcount: A:0.40, C:0.11, G:0.22, T:0.27
Consensus pattern (19 bp):
TTCAAAGATTGAGAAGCAT
Found at i:1070769 original size:35 final size:35
Alignment explanation
Indices: 1070730--1070800 Score: 124
Period size: 35 Copynumber: 2.0 Consensus size: 35
1070720 GCTGAATGCA
*
1070730 CCTCCAAGATTCCAATAGCAAAATCAGGCACCTTT
1 CCTCCAAGATTCCAACAGCAAAATCAGGCACCTTT
*
1070765 CCTCCAAGATTCCAACAGCAAAATCAGGCACTTTT
1 CCTCCAAGATTCCAACAGCAAAATCAGGCACCTTT
1070800 C
1 C
1070801 TCTGAAAAGA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.34, C:0.32, G:0.11, T:0.23
Consensus pattern (35 bp):
CCTCCAAGATTCCAACAGCAAAATCAGGCACCTTT
Found at i:1074232 original size:56 final size:56
Alignment explanation
Indices: 1074172--1074277 Score: 203
Period size: 56 Copynumber: 1.9 Consensus size: 56
1074162 TTGAAATTAA
*
1074172 AAAAATTTAAATTTTATTCTTCTAGCTTTTTGAGATGTAAAATTTCTAATAATAAT
1 AAAAATTTAAATTTTATTCTTCTAGCTTTTTGAGATGCAAAATTTCTAATAATAAT
1074228 AAAAATTTAAATTTTATTCTTCTAGCTTTTTGAGATGCAAAATTTCTAAT
1 AAAAATTTAAATTTTATTCTTCTAGCTTTTTGAGATGCAAAATTTCTAAT
1074278 TGAATTTTTA
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 49 1.00
ACGTcount: A:0.38, C:0.08, G:0.08, T:0.46
Consensus pattern (56 bp):
AAAAATTTAAATTTTATTCTTCTAGCTTTTTGAGATGCAAAATTTCTAATAATAAT
Found at i:1081295 original size:2 final size:2
Alignment explanation
Indices: 1081290--1081320 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
1081280 ACAACTATAT
1081290 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
1081321 TATATGTAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:1081729 original size:25 final size:26
Alignment explanation
Indices: 1081696--1081774 Score: 83
Period size: 25 Copynumber: 3.0 Consensus size: 26
1081686 TAGGTCACTG
* *
1081696 ACAAG-CTGTTAAACGTGGCTAGGCC
1 ACAAGTCTGTTATACGTGGCAAGGCC
*
1081721 AC-GGTCTGTGATTATACGTGGCAAGGCC
1 ACAAGTC--TG-TTATACGTGGCAAGGCC
1081749 ACAAGT-TGTTATACGTGGCAAGGCC
1 ACAAGTCTGTTATACGTGGCAAGGCC
1081774 A
1 A
1081775 TGAATTGATA
Statistics
Matches: 45, Mismatches: 4, Indels: 10
0.76 0.07 0.17
Matches are distributed among these distances:
24 1 0.02
25 21 0.47
26 2 0.04
27 2 0.04
28 17 0.38
29 2 0.04
ACGTcount: A:0.27, C:0.22, G:0.29, T:0.23
Consensus pattern (26 bp):
ACAAGTCTGTTATACGTGGCAAGGCC
Found at i:1081786 original size:25 final size:25
Alignment explanation
Indices: 1081733--1081791 Score: 75
Period size: 25 Copynumber: 2.4 Consensus size: 25
1081723 GGTCTGTGAT
*
1081733 TATACGTGGCAAGGCCACAAGTTGT
1 TATACGTGGCAAGGCCACAAGTTGA
*
1081758 TATACGTGGCAAGGCCATGAA-TTGA
1 TATACGTGGCAAGGCCA-CAAGTTGA
*
1081783 TATATGTGG
1 TATACGTGG
1081792 TTGTGACCAC
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
25 28 0.93
26 2 0.07
ACGTcount: A:0.29, C:0.15, G:0.29, T:0.27
Consensus pattern (25 bp):
TATACGTGGCAAGGCCACAAGTTGA
Found at i:1098299 original size:22 final size:22
Alignment explanation
Indices: 1098274--1098315 Score: 84
Period size: 22 Copynumber: 1.9 Consensus size: 22
1098264 GTTTAAAAAT
1098274 AGAGTTGAAATTATGTCTTAAC
1 AGAGTTGAAATTATGTCTTAAC
1098296 AGAGTTGAAATTATGTCTTA
1 AGAGTTGAAATTATGTCTTA
1098316 TCTTTTCTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.36, C:0.07, G:0.19, T:0.38
Consensus pattern (22 bp):
AGAGTTGAAATTATGTCTTAAC
Found at i:1102466 original size:76 final size:77
Alignment explanation
Indices: 1102366--1102529 Score: 206
Period size: 76 Copynumber: 2.1 Consensus size: 77
1102356 TCAATTTTCT
* * * * * *
1102366 AAATTAAAATACTATTTTCAATTTTAGGAATTTCTTTTAAAGTATGAAATAATTTCTTA-TTCTA
1 AAATTAAAATACTATCTTCAATTTTAGGAATTGCTTTCAAAGTAGGAAACAATTTCCTATTTCTA
1102430 ATGAATCACCCA
66 ATGAATCACCCA
* *
1102442 AAATTAAAATTCTATCCTT-AATTTTAGGAATTGCTTTCAAAGTAGGAAACAATTTCCTATTTTT
1 AAATTAAAATACTAT-CTTCAATTTTAGGAATTGCTTTCAAAGTAGGAAACAATTTCCTATTTCT
* * *
1102506 TATGGATCACCTA
65 AATGAATCACCCA
1102519 AAATTAAAATA
1 AAATTAAAATA
1102530 GATAGTTTTT
Statistics
Matches: 74, Mismatches: 12, Indels: 3
0.83 0.13 0.03
Matches are distributed among these distances:
76 49 0.66
77 25 0.34
ACGTcount: A:0.40, C:0.12, G:0.08, T:0.40
Consensus pattern (77 bp):
AAATTAAAATACTATCTTCAATTTTAGGAATTGCTTTCAAAGTAGGAAACAATTTCCTATTTCTA
ATGAATCACCCA
Found at i:1108944 original size:10 final size:10
Alignment explanation
Indices: 1108925--1108968 Score: 56
Period size: 10 Copynumber: 4.4 Consensus size: 10
1108915 TAATTAGTTT
1108925 ATTT-TTTTA
1 ATTTATTTTA
1108934 ATTTATTTTA
1 ATTTATTTTA
1108944 ATTTTATGTTT-
1 A-TTTAT-TTTA
1108955 ATTTATTTTA
1 ATTTATTTTA
1108965 ATTT
1 ATTT
1108969 GACTATTATT
Statistics
Matches: 31, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
9 7 0.23
10 15 0.48
11 6 0.19
12 3 0.10
ACGTcount: A:0.25, C:0.00, G:0.02, T:0.73
Consensus pattern (10 bp):
ATTTATTTTA
Found at i:1108945 original size:27 final size:26
Alignment explanation
Indices: 1108889--1108968 Score: 72
Period size: 27 Copynumber: 2.8 Consensus size: 26
1108879 TTTAATTAGA
*
1108889 AATTAGTTTATTTTTAGTT-GTTTTTAT
1 AATTAGTTTATTTTT--TTAATTTTTAT
*
1108916 AATTAGTTTATTTTTTTAATTTATTTT
1 AATTAGTTTATTTTTTTAATTT-TTAT
1108943 AATTTTATGTTTATTTATTTTAATTT
1 AA--TTA-GTTTATTT-TTTTAATTT
1108969 GACTATTATT
Statistics
Matches: 45, Mismatches: 2, Indels: 8
0.82 0.04 0.15
Matches are distributed among these distances:
25 2 0.04
26 3 0.07
27 20 0.44
29 3 0.07
30 8 0.18
31 9 0.20
ACGTcount: A:0.25, C:0.00, G:0.06, T:0.69
Consensus pattern (26 bp):
AATTAGTTTATTTTTTTAATTTTTAT
Found at i:1108977 original size:21 final size:21
Alignment explanation
Indices: 1108934--1108982 Score: 64
Period size: 21 Copynumber: 2.3 Consensus size: 21
1108924 TATTTTTTTA
* *
1108934 ATTTATTTTAATTTTATGTTT
1 ATTTATTTTAATTTGATGATT
1108955 ATTTATTTTAATTTGACT-ATT
1 ATTTATTTTAATTTGA-TGATT
1108976 ATTTATT
1 ATTTATT
1108983 GTTGGTCTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 24 0.96
22 1 0.04
ACGTcount: A:0.27, C:0.02, G:0.04, T:0.67
Consensus pattern (21 bp):
ATTTATTTTAATTTGATGATT
Found at i:1110721 original size:26 final size:26
Alignment explanation
Indices: 1110684--1110735 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
1110674 AGTTTTCCTA
* * *
1110684 GAATGCCTCTAACATTTCTAAGAACT
1 GAATGCCCCTAAAATTTCCAAGAACT
1110710 GAATGCCCCTAAAATTTCCAAGAACT
1 GAATGCCCCTAAAATTTCCAAGAACT
1110736 TCAACCCTGT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.37, C:0.25, G:0.12, T:0.27
Consensus pattern (26 bp):
GAATGCCCCTAAAATTTCCAAGAACT
Found at i:1119475 original size:17 final size:18
Alignment explanation
Indices: 1119442--1119476 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
1119432 ATAGAGATAT
*
1119442 GATATTTTGATTAAAATA
1 GATATTTTGAATAAAATA
1119460 GATATTTT-AATAAAATA
1 GATATTTTGAATAAAATA
1119477 AGTGGGAAGA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.49, C:0.00, G:0.09, T:0.43
Consensus pattern (18 bp):
GATATTTTGAATAAAATA
Found at i:1122468 original size:29 final size:30
Alignment explanation
Indices: 1122436--1122519 Score: 109
Period size: 29 Copynumber: 2.9 Consensus size: 30
1122426 ACATTTAGAG
* * *
1122436 ATCAGTTTTCAATCCATATAACTCAAGT-A
1 ATCAATTTTCAGTCCATAAAACTCAAGTGA
* *
1122465 ATCATTTTTCAGTCCGTAAAACTCAAGTGA
1 ATCAATTTTCAGTCCATAAAACTCAAGTGA
1122495 A-CAATTTTCAGTCCATAAAACTCAA
1 ATCAATTTTCAGTCCATAAAACTCAA
1122520 CCAATGCATT
Statistics
Matches: 48, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
29 46 0.96
30 2 0.04
ACGTcount: A:0.38, C:0.21, G:0.08, T:0.32
Consensus pattern (30 bp):
ATCAATTTTCAGTCCATAAAACTCAAGTGA
Found at i:1123425 original size:41 final size:40
Alignment explanation
Indices: 1123353--1123528 Score: 181
Period size: 40 Copynumber: 4.4 Consensus size: 40
1123343 GGGTCATGAT
* ** *
1123353 GACTTGATCTTAAACTTCATACATTGTTTCAAGGGTTTTGC
1 GACTTGATCTTGAACTTCATATTTTGATTCAAGGG-TTTGC
* * *
1123394 GACTTGATCTTGAACTTAATATTTTGATTCAAGTGTTTAC
1 GACTTGATCTTGAACTTCATATTTTGATTCAAGGGTTTGC
* * * * * * **
1123434 AACTTGATTTTGAACTTCGTATTTTGATTCCAGTGTATAT
1 GACTTGATCTTGAACTTCATATTTTGATTCAAGGGTTTGC
* *
1123474 GACTTGATTTTGAACTTCGTATTTTGATTCAAGGGTTTGC
1 GACTTGATCTTGAACTTCATATTTTGATTCAAGGGTTTGC
*
1123514 AACTTGATCTTGAAC
1 GACTTGATCTTGAAC
1123529 GAATGACTTG
Statistics
Matches: 113, Mismatches: 22, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
40 84 0.74
41 29 0.26
ACGTcount: A:0.25, C:0.14, G:0.17, T:0.44
Consensus pattern (40 bp):
GACTTGATCTTGAACTTCATATTTTGATTCAAGGGTTTGC
Found at i:1123577 original size:52 final size:51
Alignment explanation
Indices: 1123515--1123791 Score: 225
Period size: 52 Copynumber: 5.4 Consensus size: 51
1123505 AGGGTTTGCA
** * * *
1123515 ACTTGATCTTGAACGAATGACTTGGAGATTTCGTTTAAAGGGTCTTATGATG
1 ACTTGATCTTGAACGAACAATTTGGAGATTT-GTTTCAAGGGTCTAATGATG
* * * * *
1123567 ACTTGATCTTGAATGAACAATTTGGAAACTTTGTTTCATGGGTTTGATGATG
1 ACTTGATCTTGAACGAACAATTTGGAGA-TTTGTTTCAAGGGTCTAATGATG
* * * *
1123619 ACTTGATCTTGAGCGAACAATTTAGAGGCTTTGTTTCAAGGGTCTAATAATG
1 ACTTGATCTTGAACGAACAATTTGGA-GATTTGTTTCAAGGGTCTAATGATG
* * * ** * * *
1123671 ACTTGGTTTTGAATGAATGATATGGAAACTTTGCTTT-AAGGGTCTGATGATG
1 ACTTGATCTTGAACGAACAATTTGGAGA-TTTG-TTTCAAGGGTCTAATGATG
* * * * *
1123723 ACTTGGTCTTGAACAAACAA-ATGGAGACCTCGTTTCAAGGGTCTAATGATG
1 ACTTGATCTTGAACGAACAATTTGGAGA-TTTGTTTCAAGGGTCTAATGATG
* *
1123774 ACTTGGTCTTGAATGAAC
1 ACTTGATCTTGAACGAAC
1123792 GACACAATGA
Statistics
Matches: 179, Mismatches: 41, Indels: 11
0.77 0.18 0.05
Matches are distributed among these distances:
50 3 0.02
51 39 0.22
52 131 0.73
53 6 0.03
ACGTcount: A:0.28, C:0.12, G:0.24, T:0.35
Consensus pattern (51 bp):
ACTTGATCTTGAACGAACAATTTGGAGATTTGTTTCAAGGGTCTAATGATG
Found at i:1123672 original size:104 final size:103
Alignment explanation
Indices: 1123545--1123791 Score: 307
Period size: 104 Copynumber: 2.4 Consensus size: 103
1123535 CTTGGAGATT
* * * * *
1123545 TCGTTTAAAGGGTCTTATGATGACTTGATCTTGAATGAACAATTTGGAAACTTTG-TTTCATGGG
1 TCGTTTCAAGGGTCTAATGATGACTTGGTCTTGAATGAACAATATGGAAACTTTGCTTT-AAGGG
* * * * * *
1123609 TTTGATGATGACTTGATCTTGAGCGAACAATTTAGAGGCT
65 TCTGATGATGACTTGATCTTGAACAAACAA-ATAGAGACC
* * * **
1123649 TTGTTTCAAGGGTCTAATAATGACTTGGTTTTGAATGAATGATATGGAAACTTTGCTTTAAGGGT
1 TCGTTTCAAGGGTCTAATGATGACTTGGTCTTGAATGAACAATATGGAAACTTTGCTTTAAGGGT
* *
1123714 CTGATGATGACTTGGTCTTGAACAAACAAATGGAGACC
66 CTGATGATGACTTGATCTTGAACAAACAAATAGAGACC
1123752 TCGTTTCAAGGGTCTAATGATGACTTGGTCTTGAATGAAC
1 TCGTTTCAAGGGTCTAATGATGACTTGGTCTTGAATGAAC
1123792 GACACAATGA
Statistics
Matches: 120, Mismatches: 22, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
103 41 0.34
104 76 0.63
105 3 0.03
ACGTcount: A:0.28, C:0.12, G:0.24, T:0.36
Consensus pattern (103 bp):
TCGTTTCAAGGGTCTAATGATGACTTGGTCTTGAATGAACAATATGGAAACTTTGCTTTAAGGGT
CTGATGATGACTTGATCTTGAACAAACAAATAGAGACC
Found at i:1124457 original size:11 final size:11
Alignment explanation
Indices: 1124443--1124473 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
1124433 TTTGGAATTA
1124443 TTTTCCTTTTT
1 TTTTCCTTTTT
1124454 TTTTCCTTTTT
1 TTTTCCTTTTT
*
1124465 TTCTCCTTT
1 TTTTCCTTT
1124474 AAAAGTATAC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (11 bp):
TTTTCCTTTTT
Found at i:1124521 original size:22 final size:20
Alignment explanation
Indices: 1124502--1124547 Score: 62
Period size: 18 Copynumber: 2.4 Consensus size: 20
1124492 TTATTTTTAT
1124502 TCTTTTATTTTCCTATTTTTC
1 TCTTTT-TTTTCCTATTTTTC
1124523 TCTTTTTTTT-CT-TTTTTC
1 TCTTTTTTTTCCTATTTTTC
1124541 T-TTTTTT
1 TCTTTTTT
1124548 CTCTCCTTTG
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
17 6 0.24
18 7 0.28
19 2 0.08
20 4 0.16
21 6 0.24
ACGTcount: A:0.04, C:0.15, G:0.00, T:0.80
Consensus pattern (20 bp):
TCTTTTTTTTCCTATTTTTC
Found at i:1124528 original size:8 final size:9
Alignment explanation
Indices: 1124517--1124551 Score: 54
Period size: 9 Copynumber: 4.0 Consensus size: 9
1124507 TATTTTCCTA
1124517 TTTTTCTCT
1 TTTTTCTCT
*
1124526 TTTTTTTCT
1 TTTTTCTCT
1124535 TTTTTCT-T
1 TTTTTCTCT
1124543 TTTTTCTCT
1 TTTTTCTCT
1124552 CCTTTGTAAG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
8 8 0.35
9 15 0.65
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (9 bp):
TTTTTCTCT
Found at i:1124712 original size:35 final size:36
Alignment explanation
Indices: 1124667--1124736 Score: 99
Period size: 35 Copynumber: 2.0 Consensus size: 36
1124657 ATACTAAATC
1124667 CTTTTATATTTTTTCCTTCATTTTC-CTTTATTTTCT
1 CTTTTATATTTTTTCCTTCATTTTCTCTTT-TTTTCT
**
1124703 CTTTT-TATTTTTTCCTTTTTTTTCTCTTTTTTTC
1 CTTTTATATTTTTTCCTTCATTTTCTCTTTTTTTC
1124737 CCTTCTTTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
35 22 0.71
36 9 0.29
ACGTcount: A:0.07, C:0.19, G:0.00, T:0.74
Consensus pattern (36 bp):
CTTTTATATTTTTTCCTTCATTTTCTCTTTTTTTCT
Found at i:1124715 original size:25 final size:24
Alignment explanation
Indices: 1124687--1124777 Score: 109
Period size: 25 Copynumber: 3.8 Consensus size: 24
1124677 TTTTCCTTCA
1124687 TTTTCCTTTATTTTCTCTTTTTATT
1 TTTTCCTTT-TTTTCTCTTTTTATT
*
1124712 TTTTCCTTTTTTT-TC-TCTT-TT
1 TTTTCCTTTTTTTCTCTTTTTATT
*
1124733 TTTCCCTTCTTTTTC-CTTTTTATT
1 TTTTCCTT-TTTTTCTCTTTTTATT
1124757 TATTTCCTTTTTTTCTCTTTT
1 T-TTTCCTTTTTTTCTCTTTT
1124778 ATAAGTATAC
Statistics
Matches: 56, Mismatches: 4, Indels: 12
0.78 0.06 0.17
Matches are distributed among these distances:
21 9 0.16
22 9 0.16
23 5 0.09
24 13 0.23
25 20 0.36
ACGTcount: A:0.04, C:0.20, G:0.00, T:0.76
Consensus pattern (24 bp):
TTTTCCTTTTTTTCTCTTTTTATT
Found at i:1124720 original size:14 final size:13
Alignment explanation
Indices: 1124693--1124733 Score: 57
Period size: 13 Copynumber: 3.2 Consensus size: 13
1124683 TTCATTTTCC
1124693 TTTATTTTCTCTT
1 TTTATTTTCTCTT
* *
1124706 TTTATTTTTTCCT
1 TTTATTTTCTCTT
1124719 TTT-TTTTCTCTT
1 TTTATTTTCTCTT
1124731 TTT
1 TTT
1124734 TTCCCTTCTT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
12 10 0.42
13 14 0.58
ACGTcount: A:0.05, C:0.15, G:0.00, T:0.80
Consensus pattern (13 bp):
TTTATTTTCTCTT
Found at i:1124724 original size:45 final size:46
Alignment explanation
Indices: 1124675--1124775 Score: 131
Period size: 45 Copynumber: 2.2 Consensus size: 46
1124665 TCCTTTTATA
1124675 TTTTTTC-CTTCATTTT-CCTT-TATTTTCTCTTTTTATTT-TTTCCTT
1 TTTTTTCTCTT-ATTTTCCCTTCT-TTTTC-CTTTTTATTTATTTCCTT
*
1124720 TTTTTTCTCTTTTTTTCCCTTCTTTTTCCTTTTTATTTATTTCC-T
1 TTTTTTCTCTTATTTTCCCTTCTTTTTCCTTTTTATTTATTTCCTT
1124765 TTTTTTCTCTT
1 TTTTTTCTCTT
1124776 TTATAAGTAT
Statistics
Matches: 51, Mismatches: 1, Indels: 8
0.85 0.02 0.13
Matches are distributed among these distances:
45 33 0.65
46 17 0.33
47 1 0.02
ACGTcount: A:0.05, C:0.21, G:0.00, T:0.74
Consensus pattern (46 bp):
TTTTTTCTCTTATTTTCCCTTCTTTTTCCTTTTTATTTATTTCCTT
Done.